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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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) 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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $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' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ), 'gf_id' => 'HOM05D001309', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001309' ), 'data_identifier' => 'HOM05D001309', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001309', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '480', 'num_species' => '44' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia00177' => 'ach', 'Actinidia01605' => 'ach', 'Actinidia26168' => 'ach', 'Actinidia26169' => 'ach', 'Actinidia39002' => 'ach', 'Atru.chr1.767' => 'acertr', 'Atru.chr11.300' => 'acertr', 'Atru.chr12.351' => 'acertr', 'Atru.chr2.2206' => 'acertr', 'Atru.chr3.658' => 'acertr', 'Atru.chr6.1726' => 'acertr', 'Atru.chr7.472' => 'acertr', 'AUR62040089' => 'cqu', 'AUR62041672' => 'cqu', 'CAN.G739.1' => 'can', 'CANSAT11G0213' => 'cansat', 'CANSAT11G1463' => 'cansat', 'CANSAT21G2150' => 'cansat', 'CANSAT35G0020' => 'cansat', 'CANSAT64G1238' => 'cansat', 'Ca_03001_v3' => 'car', 'Ca_04520_v3' => 'car', 'Ca_07364_v3' => 'car', 'Ca_08868_v3' => 'car', 'Ca_12196_v3' => 'car', 'Ca_18931_v3' => 'car', 'Ca_28313_v3' => 'car', 'CiPaw.04G150200' => 'cil', 'CiPaw.09G181600' => 'cil', 'CiPaw.10G087600' => 'cil', 'CiPaw.16G058400' => 'cil', 'CiPaw.16G105200' => 'cil', 'ClCG06G005780' => 'cla', 'ClCG08G004830' => 'cla', 'ClCG09G013760' => 'cla', 'COL.COLO4_05115' => 'col', 'COL.COLO4_06576' => 'col', 'COL.COLO4_07670' => 'col', 'COL.COLO4_08701' => 'col', 'COL.COLO4_09891' => 'col', 'COL.COLO4_15532' => 'col', 'COL.COLO4_15542' => 'col', 'COL.COLO4_15543' => 'col', 'COL.COLO4_15867' => 'col', 'COL.COLO4_17726' => 'col', 'COL.COLO4_21802' => 'col', 'COL.COLO4_23773' => 'col', 'COL.COLO4_24303' => 'col', 'COL.COLO4_24420' => 'col', 'COL.COLO4_29078' => 'col', 'COL.COLO4_29219' => 'col', 'COL.COLO4_33862' => 'col', 'COL.COLO4_35197' => 'col', 'COL.COLO4_36623' => 'col', 'Cpa.g.c35072.1' => 'cpa', 'Cpa.g.c35072.2' => 'cpa', 'Cpa.g.sc817.3' => 'cpa', 'CSS0000023' => 'camsi', 'CSS0000056' => 'camsi', 'CSS0000994' => 'camsi', 'CSS0001899' => 'camsi', 'CSS0004008' => 'camsi', 'CSS0004946' => 'camsi', 'CSS0006329' => 'camsi', 'CSS0006534' => 'camsi', 'CSS0007321' => 'camsi', 'CSS0011055' => 'camsi', 'CSS0011333' => 'camsi', 'CSS0013398' => 'camsi', 'CSS0014937' => 'camsi', 'CSS0015098' => 'camsi', 'CSS0016301' => 'camsi', 'CSS0017872' => 'camsi', 'CSS0018077' => 'camsi', 'CSS0019964' => 'camsi', 'CSS0023154' => 'camsi', 'CSS0024690' => 'camsi', 'CSS0025581' => 'camsi', 'CSS0027143' => 'camsi', 'CSS0030235' => 'camsi', 'CSS0030327' => 'camsi', 'CSS0031187' => 'camsi', 'CSS0035442' => 'camsi', 'CSS0036507' => 'camsi', 'CSS0040510' => 'camsi', 'CSS0042181' => 'camsi', 'DCAR_001756' => 'dca', 'Dinv04435' => 'din', 'Dinv09828' => 'din', 'Dinv19412' => 'din', 'ECA236G2738' => 'eca', 'ECA238G0557' => 'eca', 'ECA247G2658' => 'eca', 'Glyma.03G071600' => 'gma', 'Gohir.A01G183600' => 'ghi', 'Gohir.A10G125500' => 'ghi', 'Gohir.A12G044100' => 'ghi', 'Gohir.D01G174600' => 'ghi', 'Gohir.D04G003250' => 'ghi', 'Gohir.D10G156350' => 'ghi', 'Gohir.D12G043100' => 'ghi', 'Gorai.002G216700' => 'gra', 'Gorai.008G045300' => 'gra', 'GSVIVG01024447001' => 'vvi', 'GSVIVG01024448001' => 'vvi', 'HanXRQChr03g0064971' => 'han', 'HanXRQChr16g0513901' => 'han', 'Hma1.2p1_0174F.1_g076560' => 'hma', 'Lj1g0004304' => 'lja', 'Lj4g0005304' => 'lja', 'Lj4g0009512' => 'lja', 'Lj4g0021808' => 'lja', 'Lj5g0025673' => 'lja', 'Lj6g0017443' => 'lja', 'Lj9A299T34' => 'lonja', 'Lj9A299T35' => 'lonja', 'Lsat_1_v5_gn_4_141161' => 'lsa', 'Lsat_1_v5_gn_4_99060' => 'lsa', 'Lsat_1_v5_gn_7_106561' => 'lsa', 'Lsat_1_v5_gn_8_134701' => 'lsa', 'Lsat_1_v5_gn_9_120520' => 'lsa', 'Manes.07G023800' => 'mes', 'Manes.10G118800' => 'mes', 'Manes.16G033751' => 'mes', 'MBI01_g25641_MAGBIO' => 'mbi', 'MBI01_g25649_MAGBIO' => 'mbi', 'MBI02_g14797_MAGBIO' => 'mbi', 'MBI02_g15369_MAGBIO' => 'mbi', 'MBI02_g35833_MAGBIO' => 'mbi', 'MBI03_g15598_MAGBIO' => 'mbi', 'MBI03_g31632_MAGBIO' => 'mbi', 'MBI03_g33626_MAGBIO' => 'mbi', 'MBI05_g40697_MAGBIO' => 'mbi', 'MBI06_g39196_MAGBIO' => 'mbi', 'MBI06_g39197_MAGBIO' => 'mbi', 'MBI06_g41779_MAGBIO' => 'mbi', 'MBI06_g41780_MAGBIO' => 'mbi', 'MBI06_g41781_MAGBIO' => 'mbi', 'MBI08_g05402_MAGBIO' => 'mbi', 'MBI08_g25554_MAGBIO' => 'mbi', 'MBI08_g39437_MAGBIO' => 'mbi', 'MBI09_g15192_MAGBIO' => 'mbi', 'MBI09_g33431_MAGBIO' => 'mbi', 'MBI09_g41430_MAGBIO' => 'mbi', 'MBI09_g41431_MAGBIO' => 'mbi', 'MBI10_g17724_MAGBIO' => 'mbi', 'MBI10_g17725_MAGBIO' => 'mbi', 'MBI11_g19485_MAGBIO' => 'mbi', 'MBI11_g30647_MAGBIO' => 'mbi', 'MBI12_g16728_MAGBIO' => 'mbi', 'MBI12_g24830_MAGBIO' => 'mbi', 'MBI12_g24831_MAGBIO' => 'mbi', 'MBI13_g26301_MAGBIO' => 'mbi', 'MBI14_g03113_MAGBIO' => 'mbi', 'MBI14_g03116_MAGBIO' => 'mbi', 'MBI14_g07746_MAGBIO' => 'mbi', 'MBI14_g15787_MAGBIO' => 'mbi', 'MBI14_g27230_MAGBIO' => 'mbi', 'MBI14_g41280_MAGBIO' => 'mbi', 'MBI15_g13426_MAGBIO' => 'mbi', 'MBI15_g14066_MAGBIO' => 'mbi', 'MBI15_g16946_MAGBIO' => 'mbi', 'MBI15_g36793_MAGBIO' => 'mbi', 'MBI16_g15341_MAGBIO' => 'mbi', 'MBI16_g25485_MAGBIO' => 'mbi', 'MBI16_g34941_MAGBIO' => 'mbi', 'MBI17_g16204_MAGBIO' => 'mbi', 'MBI17_g16205_MAGBIO' => 'mbi', 'MBI17_g21607_MAGBIO' => 'mbi', 'MBI17_g22143_MAGBIO' => 'mbi', 'MBI17_g42351_MAGBIO' => 'mbi', 'MBI18_g02640_MAGBIO' => 'mbi', 'MBI18_g29976_MAGBIO' => 'mbi', 'MBI18_g39412_MAGBIO' => 'mbi', 'MBI18_g46081_MAGBIO' => 'mbi', 'MBI19_g00149_MAGBIO' => 'mbi', 'MBI19_g00150_MAGBIO' => 'mbi', 'MBI19_g00864_MAGBIO' => 'mbi', 'MBI19_g00865_MAGBIO' => 'mbi', 'MBI19_g05595_MAGBIO' => 'mbi', 'MBI19_g05596_MAGBIO' => 'mbi', 'MBI19_g05598_MAGBIO' => 'mbi', 'MBI19_g11840_MAGBIO' => 'mbi', 'MBI19_g12819_MAGBIO' => 'mbi', 'MBI19_g12820_MAGBIO' => 'mbi', 'MBI19_g16213_MAGBIO' => 'mbi', 'MBI19_g24370_MAGBIO' => 'mbi', 'MBI19_g28117_MAGBIO' => 'mbi', 'MBI19_g33996_MAGBIO' => 'mbi', 'MBI19_g33997_MAGBIO' => 'mbi', 'Medtr4g035745' => 'mtr', 'MELO3C031743.2' => 'cme', 'Nitab4.5_0000007g0330' => 'nta', 'Nitab4.5_0000009g0080' => 'nta', 'Nitab4.5_0000024g0080' => 'nta', 'Nitab4.5_0000039g0160' => 'nta', 'Nitab4.5_0000049g0050' => 'nta', 'Nitab4.5_0000067g0100' => 'nta', 'Nitab4.5_0000067g0110' => 'nta', 'Nitab4.5_0000151g0380' => 'nta', 'Nitab4.5_0000188g0020' => 'nta', 'Nitab4.5_0000193g0070' => 'nta', 'Nitab4.5_0000220g0070' => 'nta', 'Nitab4.5_0000220g0080' => 'nta', 'Nitab4.5_0000261g0180' => 'nta', 'Nitab4.5_0000285g0070' => 'nta', 'Nitab4.5_0000285g0080' => 'nta', 'Nitab4.5_0000318g0200' => 'nta', 'Nitab4.5_0000356g0120' => 'nta', 'Nitab4.5_0000415g0060' => 'nta', 'Nitab4.5_0000423g0070' => 'nta', 'Nitab4.5_0000423g0080' => 'nta', 'Nitab4.5_0000423g0090' => 'nta', 'Nitab4.5_0000440g0120' => 'nta', 'Nitab4.5_0000440g0140' => 'nta', 'Nitab4.5_0000493g0130' => 'nta', 'Nitab4.5_0000522g0130' => 'nta', 'Nitab4.5_0000522g0140' => 'nta', 'Nitab4.5_0000524g0110' => 'nta', 'Nitab4.5_0000524g0120' => 'nta', 'Nitab4.5_0000524g0130' => 'nta', 'Nitab4.5_0000577g0060' => 'nta', 'Nitab4.5_0000580g0310' => 'nta', 'Nitab4.5_0000581g0060' => 'nta', 'Nitab4.5_0000644g0170' => 'nta', 'Nitab4.5_0000689g0040' => 'nta', 'Nitab4.5_0000721g0230' => 'nta', 'Nitab4.5_0000740g0010' => 'nta', 'Nitab4.5_0000769g0040' => 'nta', 'Nitab4.5_0000769g0060' => 'nta', 'Nitab4.5_0000774g0010' => 'nta', 'Nitab4.5_0000781g0070' => 'nta', 'Nitab4.5_0000789g0050' => 'nta', 'Nitab4.5_0000789g0060' => 'nta', 'Nitab4.5_0000804g0010' => 'nta', 'Nitab4.5_0000866g0110' => 'nta', 'Nitab4.5_0000898g0140' => 'nta', 'Nitab4.5_0000898g0150' => 'nta', 'Nitab4.5_0000928g0030' => 'nta', 'Nitab4.5_0000931g0070' => 'nta', 'Nitab4.5_0000989g0050' => 'nta', 'Nitab4.5_0000999g0130' => 'nta', 'Nitab4.5_0001086g0070' => 'nta', 'Nitab4.5_0001128g0020' => 'nta', 'Nitab4.5_0001130g0040' => 'nta', 'Nitab4.5_0001132g0060' => 'nta', 'Nitab4.5_0001170g0020' => 'nta', 'Nitab4.5_0001199g0010' => 'nta', 'Nitab4.5_0001199g0060' => 'nta', 'Nitab4.5_0001199g0070' => 'nta', 'Nitab4.5_0001199g0080' => 'nta', 'Nitab4.5_0001282g0040' => 'nta', 'Nitab4.5_0001313g0030' => 'nta', 'Nitab4.5_0001313g0060' => 'nta', 'Nitab4.5_0001346g0040' => 'nta', 'Nitab4.5_0001369g0070' => 'nta', 'Nitab4.5_0001388g0040' => 'nta', 'Nitab4.5_0001481g0040' => 'nta', 'Nitab4.5_0001490g0010' => 'nta', 'Nitab4.5_0001523g0060' => 'nta', 'Nitab4.5_0001550g0090' => 'nta', 'Nitab4.5_0001556g0050' => 'nta', 'Nitab4.5_0001645g0040' => 'nta', 'Nitab4.5_0001903g0030' => 'nta', 'Nitab4.5_0001903g0050' => 'nta', 'Nitab4.5_0002232g0060' => 'nta', 'Nitab4.5_0002263g0070' => 'nta', 'Nitab4.5_0002263g0080' => 'nta', 'Nitab4.5_0002263g0100' => 'nta', 'Nitab4.5_0002385g0040' => 'nta', 'Nitab4.5_0002394g0040' => 'nta', 'Nitab4.5_0002419g0030' => 'nta', 'Nitab4.5_0002419g0040' => 'nta', 'Nitab4.5_0002459g0030' => 'nta', 'Nitab4.5_0002496g0090' => 'nta', 'Nitab4.5_0002530g0050' => 'nta', 'Nitab4.5_0002530g0060' => 'nta', 'Nitab4.5_0002768g0010' => 'nta', 'Nitab4.5_0002768g0020' => 'nta', 'Nitab4.5_0002925g0020' => 'nta', 'Nitab4.5_0003082g0080' => 'nta', 'Nitab4.5_0003082g0100' => 'nta', 'Nitab4.5_0003202g0010' => 'nta', 'Nitab4.5_0003202g0030' => 'nta', 'Nitab4.5_0003283g0020' => 'nta', 'Nitab4.5_0003296g0010' => 'nta', 'Nitab4.5_0003332g0040' => 'nta', 'Nitab4.5_0003339g0010' => 'nta', 'Nitab4.5_0003427g0020' => 'nta', 'Nitab4.5_0003427g0030' => 'nta', 'Nitab4.5_0003433g0010' => 'nta', 'Nitab4.5_0003433g0020' => 'nta', 'Nitab4.5_0003520g0010' => 'nta', 'Nitab4.5_0003611g0020' => 'nta', 'Nitab4.5_0003622g0020' => 'nta', 'Nitab4.5_0003690g0010' => 'nta', 'Nitab4.5_0003703g0020' => 'nta', 'Nitab4.5_0003703g0040' => 'nta', 'Nitab4.5_0003836g0030' => 'nta', 'Nitab4.5_0003905g0040' => 'nta', 'Nitab4.5_0003970g0030' => 'nta', 'Nitab4.5_0003970g0040' => 'nta', 'Nitab4.5_0004210g0030' => 'nta', 'Nitab4.5_0004285g0030' => 'nta', 'Nitab4.5_0004353g0010' => 'nta', 'Nitab4.5_0004438g0040' => 'nta', 'Nitab4.5_0004688g0080' => 'nta', 'Nitab4.5_0004695g0040' => 'nta', 'Nitab4.5_0004780g0010' => 'nta', 'Nitab4.5_0004891g0030' => 'nta', 'Nitab4.5_0005127g0040' => 'nta', 'Nitab4.5_0005139g0010' => 'nta', 'Nitab4.5_0005502g0020' => 'nta', 'Nitab4.5_0005502g0030' => 'nta', 'Nitab4.5_0005558g0030' => 'nta', 'Nitab4.5_0005558g0060' => 'nta', 'Nitab4.5_0005645g0010' => 'nta', 'Nitab4.5_0005758g0050' => 'nta', 'Nitab4.5_0005765g0050' => 'nta', 'Nitab4.5_0005861g0040' => 'nta', 'Nitab4.5_0006065g0020' => 'nta', 'Nitab4.5_0006068g0020' => 'nta', 'Nitab4.5_0006078g0010' => 'nta', 'Nitab4.5_0006526g0030' => 'nta', 'Nitab4.5_0006718g0020' => 'nta', 'Nitab4.5_0006738g0030' => 'nta', 'Nitab4.5_0006915g0020' => 'nta', 'Nitab4.5_0007152g0010' => 'nta', 'Nitab4.5_0007152g0020' => 'nta', 'Nitab4.5_0007229g0030' => 'nta', 'Nitab4.5_0007229g0040' => 'nta', 'Nitab4.5_0007957g0010' => 'nta', 'Nitab4.5_0007969g0020' => 'nta', 'Nitab4.5_0007969g0040' => 'nta', 'Nitab4.5_0007978g0040' => 'nta', 'Nitab4.5_0008316g0050' => 'nta', 'Nitab4.5_0008492g0040' => 'nta', 'Nitab4.5_0008584g0010' => 'nta', 'Nitab4.5_0008623g0010' => 'nta', 'Nitab4.5_0008623g0020' => 'nta', 'Nitab4.5_0008623g0030' => 'nta', 'Nitab4.5_0008635g0010' => 'nta', 'Nitab4.5_0008635g0020' => 'nta', 'Nitab4.5_0008724g0030' => 'nta', 'Nitab4.5_0008766g0040' => 'nta', 'Nitab4.5_0008994g0030' => 'nta', 'Nitab4.5_0009316g0010' => 'nta', 'Nitab4.5_0010256g0030' => 'nta', 'Nitab4.5_0010441g0010' => 'nta', 'Nitab4.5_0010441g0020' => 'nta', 'Nitab4.5_0010582g0050' => 'nta', 'Nitab4.5_0012715g0010' => 'nta', 'Nitab4.5_0012715g0020' => 'nta', 'Nitab4.5_0012758g0020' => 'nta', 'Nitab4.5_0014570g0010' => 'nta', 'Nitab4.5_0014671g0010' => 'nta', 'Nitab4.5_0014949g0010' => 'nta', 'Nitab4.5_0014949g0020' => 'nta', 'Nitab4.5_0015781g0010' => 'nta', 'Nitab4.5_0016483g0010' => 'nta', 'Nitab4.5_0016483g0020' => 'nta', 'Nitab4.5_0017010g0010' => 'nta', 'Nitab4.5_0026778g0010' => 'nta', 'Nitab4.5_0028686g0010' => 'nta', 'Nn1g00481' => 'nnu', 'Nn1g02510' => 'nnu', 'Nn1g07312' => 'nnu', 'Nn1g08141' => 'nnu', 'Nn1g08222' => 'nnu', 'Nn1g09472' => 'nnu', 'Nn2g11546' => 'nnu', 'Nn2g14848' => 'nnu', 'Nn3g20064' => 'nnu', 'Nn3g20149' => 'nnu', 'Nn3g20857' => 'nnu', 'Nn3g21266' => 'nnu', 'Nn3g21442' => 'nnu', 'Nn4g24072' => 'nnu', 'Nn4g24718' => 'nnu', 'Nn5g26984' => 'nnu', 'Nn7g36108' => 'nnu', 'Nn7g36848' => 'nnu', 'Nn7g37626' => 'nnu', 'Nn7g37795' => 'nnu', 'Nn7g37991' => 'nnu', 'Oeu023404.2' => 'oeu', 'Os04g0609900' => 'osa', 'Os04g0610000' => 'osa', 'Os10g0195100' => 'osa', 'Os12g0417000' => 'osa', 'Peaxi162Scf00032g00919' => 'pax', 'Peaxi162Scf00050g00139' => 'pax', 'Peaxi162Scf00524g00007' => 'pax', 'PGR044G2317' => 'pgr', 'PGR083G0420' => 'pgr', 'PGSC0003DMG400004327' => 'stu', 'PGSC0003DMG400005303' => 'stu', 'PGSC0003DMG400015737' => 'stu', 'PGSC0003DMG400021956' => 'stu', 'PGSC0003DMG400035754' => 'stu', 'PGSC0003DMG400039811' => 'stu', 'PGSC0003DMG400042577' => 'stu', 'PGSC0003DMG400046524' => 'stu', 'PSO063G3441' => 'pso', 'PSO170G4885' => 'pso', 'PSO349G0081' => 'pso', 'PSO541G0763' => 'pso', 'PSO832G1398' => 'pso', 'QL02p048942' => 'qlo', 'QL10p063736' => 'qlo', 'Rhsim01G0178700' => 'rsi', 'Rhsim03G0023700' => 'rsi', 'Rhsim04G0054800' => 'rsi', 'Rhsim06G0190000' => 'rsi', 'Rhsim10G0033700' => 'rsi', 'Rhsim11G0013700' => 'rsi', 'Rhsim11G0122900' => 'rsi', 'Rhsim13G0228900' => 'rsi', 'RhsimUnG0210900' => 'rsi', 'Sc11g0006850' => 'sci', 'Sc18g0004200' => 'sci', 'Solyc04g150151.1' => 'sly', 'Solyc04g150152.1' => 'sly', 'Solyc04g150154.1' => 'sly', 'Solyc10g049515.1' => 'sly', 'Solyc11g065205.1' => 'sly', 'Sopen01g011060' => 'spe', 'Sopen04g005960' => 'spe', 'Sopen04g022360' => 'spe', 'Sopen04g025420' => 'spe', 'Sopen08g010550' => 'spe', 'TAR078G0001' => 'tar', 'TAR344G0001' => 'tar', 'TAR362G0068' => 'tar', 'TAR362G1088' => 'tar', 'TAR365G0123' => 'tar', 'TAR365G0630' => 'tar', 'TAR369G0367' => 'tar', 'TAR369G0469' => 'tar', 'TAR369G0592' => 'tar', 'TAR371G0414' => 'tar', 'TAR371G1029' => 'tar', 'TAR374G1143' => 'tar', 'TAR375G0312' => 'tar', 'TAR375G0735' => 'tar', 'TAR375G1128' => 'tar', 'TAR376G0246' => 'tar', 'TAR381G0798' => 'tar', 'TAR383G0561' => 'tar', 'TAR472G0003' => 'tar', 'TAR622G1151' => 'tar', 'TAR623G0274' => 'tar', 'TAR623G0534' => 'tar', 'TAR623G0937' => 'tar', 'TAR624G0746' => 'tar', 'TAR624G1439' => 'tar', 'TAR625G0459' => 'tar', 'TAR628G0437' => 'tar', 'TAR629G0890' => 'tar', 'TAR629G1143' => 'tar', 'TAR629G2892' => 'tar', 'TAR633G1156' => 'tar', 'TAR633G1500' => 'tar', 'TAR633G2694' => 'tar', 'TAR636G0091' => 'tar', 'TAR636G2414' => 'tar', 'TAR636G2786' => 'tar', 'TAR636G3673' => 'tar', 'TAR705G0001' => 'tar', 'Thecc.09G100000' => 'tca', 'Thecc.10G143600' => 'tca', 'TWI15G0427' => 'twi', 'TWI31G0634' => 'twi', 'TWI31G0781' => 'twi', 'TWI34G1252' => 'twi', 'TWI53G0470' => 'twi', 'TWI56G1117' => 'twi', 'TWI60G1041' => 'twi', 'TWI75G0500' => 'twi', 'vmacro00652' => 'vma' ) $gf_id = 'HOM05D001309' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001309' ) $data_identifier = 'HOM05D001309' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 5, 'acertr' => (int) 7, 'cqu' => (int) 2, 'can' => (int) 1, 'cansat' => (int) 5, 'car' => (int) 7, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 19, 'cpa' => (int) 3, 'camsi' => (int) 29, 'dca' => (int) 1, 'din' => (int) 3, 'eca' => (int) 3, 'gma' => (int) 1, 'ghi' => (int) 7, 'gra' => (int) 2, 'vvi' => (int) 2, 'han' => (int) 2, 'hma' => (int) 1, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 3, 'mbi' => (int) 66, 'mtr' => (int) 1, 'cme' => (int) 1, 'nta' => (int) 172, 'nnu' => (int) 21, 'oeu' => (int) 1, 'osa' => (int) 4, 'pax' => (int) 3, 'pgr' => (int) 2, 'stu' => (int) 8, 'pso' => (int) 5, 'qlo' => (int) 2, 'rsi' => (int) 9, 'sci' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'tar' => (int) 38, 'tca' => (int) 2, 'twi' => (int) 8, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro00652' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 0