Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma04g01604 ATGAGCAACTTCTTGTGTAGGAATTTTGATTCTAATCTGAGTTCGAAGCATGGTTTTCTACTGAAGGCGGAGGAATTCTTTTCGGAGATGAAGAGGTCTAGAGACGACGTTTATATGGGCTCACAACTCAAGCGTCCTTCGATTTCCACTCGTCCAGAAGCATCTACACAACCCCAAATGGCTGGAGGAGGAAGTGCCCAGAAATTAACCACTAATGACGCCCTAGTATATCTCAAGAGAGTGAAGGACATATTTCAAGACAAGAGACAACAATATGAAGACTTCCTTGAAGTTATGAAAGATTTCAAGGCCCAAAGAATTGATACTGCGGGAGTCATTGCAAGAGTAAAGGATTTGTTTAAAGGCCATCGAGACCTCATTTTGGGCTTCAATACATTCTTGCCCAAAGGATATGAGATCACTCTTCCACTGGATGATGATCAACCTACACAAAAGAAACCTGTTGAGTTTGAAGAAGCTATCAATTTTGTGAACAAGATAAAGACACGATTTCAAGGCGATGATCATGTTTATAAATCATTTTTAGACATTTTAAATATGTACAGAAAGGAAAACAAGTCAATCACTGAGGTCTACCAGGAGGTTGCTGCACTTTTCCAAGAGCACCCAGATTTGCTTGTTGAGTTTACTCATTTTCTTCCAGATTCTTCAGCCACAGGATCTGTTCACTATTGCTCTGGAAGAAGTTTAATGCTCCGTGATAGGCATTCTGCCATGCCCACTATGCGGCAAATGCAAGTTGACCGGAAAGATCGAACTATTGTGTCCCATGCTGAACGTGACCTTAGTGTTGACCGTCCGGAACCAGACCATGATAGAGCTCTTATGAAACTGGACAAAGATCAACGTAGGCGCGGTGAGAAGGAAAAGGAAAGAAGAGATGATAGAGATAGGAGAGAACATGATCGGGATAGGGTTGACAGAGACTATGAGCATGATGGAAGACGGGACTTTGGCATGCATCGGTTTCCCCACAAGAGGAAAACAGCCCGTAGGATTGACGACTCTACTGCCGATCAATTGCATCCAGGTGGAGAAGGTGATGAAAATTTTGGCGTACTTCCCATCTCTTCTTATGATGATAAAAATTCTGCAAAGAGTATATACAGCCAGGAGTTTGCTTTCTGTGAAAGAGTCAAAGAGAAGTTGAGAAATGCTGAAGATTACCAGGAATTTTTGAAATGTCTCCATATCTATAGCAAGGAGATAATTACCCGAGCAGAACTTCAATCTTTGATGGGTGATTTACTTGGAAGATATTCTGATCTTATGGATGGTTTCAATGAATTTTTGGCTCGATGCGAGAGGAATGATGGATTTCTTGCTGGTGTCATGAGTAGAAAGTCATTATGGAATGAAGGAAATTTGCCTAGAACAGTGCAAGTGGAGGATAGGGAAAGAGATAGAGATCGTGAACGTGAGAAAGAGGATATTTCTAAAGATAGAGATCGTGAAAATCGAGAAAGAGATAGACTTGAAAAGAATGCTGCATTTGGAAGTAAAGATATAGTAGGTCATCGGATGTCTGTGTTTTCTAGCAAAGACAAGTATTTGGCGAAGCCAATAAATGAACTCGATCTATCGAACTGTGAACGTTGCACTCCCAGTTACCGCCTTCTGCCAAAAAATTATCCTATACCTTCGGCCAGCCAAAGAACAGATCTTGGTGATCAAGTGTTGAATGATCACTGGGTATCTGTCACTTCAGGAAGCGAGGATTACTCTTTTAAACATATGCGCAAAAACCAGTATGAAGAAAGCCTTTTCCGATGCGAAGATGACAGGTTTGAACTTGACATGTTGCTGGAGTCTGTAAATGTGACTACTAAGCGTGTTGAAGAACTACTTGAAAGGATCAACAACAATGTGATCAAAGCAGACTGTCCAATCACAATTGAGGATCACCTCACTGCTCTAAATCTGAGGTGCATCGAACGATTATATGGTGACCATGGGCTTGATGTTATGGATGTGTTGAGGAAAAATGCGTCTCTTGCTCTGCCAGTTATTTTGACCCGATTGAAGCAGAAACAGGAAGAATGGGCACGGTGTCGTTATGACTTCAATAAAGTTTGGGCTGAAATATATGCTAAGAACTATCATAAGTCACTTGATCATCGTAGCTTCTACTTCAAGCAGCAAGACACAAAAAGCTTGAGCACTAAAGCCTTGTTGGCGGAGATCAAAGAGATCAGTGAGAAGAAGCGAAAGGAAGATGATGTGTTGCTTGCTATTGCTGCTGGAAATAGACGACCCATAATTCCGAATTTGGAATTTGAGTATCCTGATCCAGAGCTTCATGAAGACCTATATCAACTAATCAAATATTCATGTGGAGAAGTTTGCTCGACAGAACAATTAGATAAGGTTATGAAGGTATGGACAACCTTCCTTGAGCCCATGCTTGGTGTTCCTTCTCGACCTCATGGTGCTGAGGACACCGAAGATGTTATTAAGGCAAAGATCCATCCTACCAAGAGTGCTACTATTAATGTAGTAGAGAGTGATGGCAGTCCTGGTGGGGGTGCCACTATGATGCACCCGAAGCCATTGAATTCGTCTAGAAATGGAGATGAAAGTATTCCACCTGAACAATCAAGTTCTTGCAGGACTTGGCCCTTGAATGGGGACAATGGGGTCAAAGAAGATAGTTTCCATGATGCAGATCGTATTGTACGGAAGGGTGATCCTTTCTGCAGTAGTTCCCAACACACTAAAATTCAGGATAATGCACCCGTAACTGATGAATTGTCTGGAGTAAGTAAACAAGACAATTCTACCGAATGCTTTGTCAATTCAAATGTATCCCTTGCAACTGCAGCAGAGCAAAGCAATGGGAAAACTAACATAGAAAACACATCAGGATTGAGCACTACTCCTTCACGACTTGGAAATAGTGCCGTTGAGAGTGGAATTGAGTTACCTTCCTTAGAGATTGGGGGCCCTACAAGACAAATTCTAACTGTGAATAGCACAGTCGCAAATGGCATAAAAGGCCACAGATATGCTGATGAGTCTGTTAGACACTTAAAAATTGAAAGGGAAGAGGGTGAATTATCTCCAAACGGAGATTTTGAAGAAGATAATTTTGCCAATTATGACGGAGAATTGAAAGCTCTGCCAGAAAAGGAAGGTGTTGCTGGCAGGCAATATCCAAGCACCCGAGGTGAAGAAGAATTATGCTACAGAGAGGCTGGTGGGGAAAATGATGCTGATGCTGATGATGAAGGGGAGGAAAGTGCTCAAAGGTCGTCAGAGGAGAGTGAAAATGCCTCTGAAAATGGTGATGTTTCTGCAAGTGATTCTGGTGATGGGGAGGATTGTTCTCGTGAAGATCATGAGGATGGAGAACATGATGATAATAAGGCTGAGAGTGAAGGTGAGGCAGAAGGGATGGCCGATGCTCACGACGTGGAAGGAGATGGAACATCTATACCCTTCTCTGAACGCTTTCTATTGACTGTAAAGCCTCTTGCCAAGCATGTTCCTCCCATGTTGCATGAAGAAGGAAGGGAGTCTCATGTATTTTATGGAAACGACTCTTTTTATGTGCTTTTTAGGCTCCACCAGACACTGTATGAGAGAATACAATCCGCAAAGATCAACTCTTCATCCTCAGAGAGGAAATGGAGGGCCTCAAGTGATACAACTCCCACGGATCTATATGCCAGGTTCATGAATGCACTTTATAGTCTACTGGACGGTTCCTCTGATAACACAAAGTTTGAGGATGATTGCCGAGCCACTATCGGAACCCAGTCATATGTTCTATTCACATTAGACAAACTAATTTATAAACTTGTTAAACAGCTTCAAGCAGTTGCCTCAGATGAAATGGATAACAAACTTCTCCAACTATATGCGTACGAAAAATCAAGAAAAACGGGAGGATTTATTGATGCAGTTTATCATGAAAATGCTCGCGTACTTCTTCATGATGAGAATATCTATCGCATAGAACGATCATCCACACCAACTCATCTTTCTATTCAGCTTATGGACTATGGCTACGATAAGCCTGAAGTAACTGCTGTTACGATGGACCCCATTTTTTCCTCTTATCTGCATAATGATTTCTTCTCAGTTCTCCCTGAGAAAAAGGTGAAGTCAGGGATCTTCTTGAAGAGAAACAAACGTAAATATGCCTGTGGCGATGAGAATTCTGCCGCATGCCATGCTTTGGAAGAGCTTAAAATTGTAAATGGTCTGGAGTGTAAAATTGCTTGCAATTCATCGAAGGTTTCGTACGTTTTAGATACAGAAGACTTTTTATTTCGTAGAAATAGCAAAAGGAAACGTCTGCATGGAAATAGCTCATGCGACAACCAGTCGAAGTCGTCTTCTAGTGGGGATTCAAGTAGTAGGAGGGTGCAGAAGTTCCACAAGCTACTTGAGAACTCATGA 4425 41.9 MSNFLCRNFDSNLSSKHGFLLKAEEFFSEMKRSRDDVYMGSQLKRPSISTRPEASTQPQMAGGGSAQKLTTNDALVYLKRVKDIFQDKRQQYEDFLEVMKDFKAQRIDTAGVIARVKDLFKGHRDLILGFNTFLPKGYEITLPLDDDQPTQKKPVEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVAALFQEHPDLLVEFTHFLPDSSATGSVHYCSGRSLMLRDRHSAMPTMRQMQVDRKDRTIVSHAERDLSVDRPEPDHDRALMKLDKDQRRRGEKEKERRDDRDRREHDRDRVDRDYEHDGRRDFGMHRFPHKRKTARRIDDSTADQLHPGGEGDENFGVLPISSYDDKNSAKSIYSQEFAFCERVKEKLRNAEDYQEFLKCLHIYSKEIITRAELQSLMGDLLGRYSDLMDGFNEFLARCERNDGFLAGVMSRKSLWNEGNLPRTVQVEDRERDRDREREKEDISKDRDRENRERDRLEKNAAFGSKDIVGHRMSVFSSKDKYLAKPINELDLSNCERCTPSYRLLPKNYPIPSASQRTDLGDQVLNDHWVSVTSGSEDYSFKHMRKNQYEESLFRCEDDRFELDMLLESVNVTTKRVEELLERINNNVIKADCPITIEDHLTALNLRCIERLYGDHGLDVMDVLRKNASLALPVILTRLKQKQEEWARCRYDFNKVWAEIYAKNYHKSLDHRSFYFKQQDTKSLSTKALLAEIKEISEKKRKEDDVLLAIAAGNRRPIIPNLEFEYPDPELHEDLYQLIKYSCGEVCSTEQLDKVMKVWTTFLEPMLGVPSRPHGAEDTEDVIKAKIHPTKSATINVVESDGSPGGGATMMHPKPLNSSRNGDESIPPEQSSSCRTWPLNGDNGVKEDSFHDADRIVRKGDPFCSSSQHTKIQDNAPVTDELSGVSKQDNSTECFVNSNVSLATAAEQSNGKTNIENTSGLSTTPSRLGNSAVESGIELPSLEIGGPTRQILTVNSTVANGIKGHRYADESVRHLKIEREEGELSPNGDFEEDNFANYDGELKALPEKEGVAGRQYPSTRGEEELCYREAGGENDADADDEGEESAQRSSEESENASENGDVSASDSGDGEDCSREDHEDGEHDDNKAESEGEAEGMADAHDVEGDGTSIPFSERFLLTVKPLAKHVPPMLHEEGRESHVFYGNDSFYVLFRLHQTLYERIQSAKINSSSSERKWRASSDTTPTDLYARFMNALYSLLDGSSDNTKFEDDCRATIGTQSYVLFTLDKLIYKLVKQLQAVASDEMDNKLLQLYAYEKSRKTGGFIDAVYHENARVLLHDENIYRIERSSTPTHLSIQLMDYGYDKPEVTAVTMDPIFSSYLHNDFFSVLPEKKVKSGIFLKRNKRKYACGDENSAACHALEELKIVNGLECKIACNSSKVSYVLDTEDFLFRRNSKRKRLHGNSSCDNQSKSSSSGDSSSRRVQKFHKLLENS 1474
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 8095595 8105898 - CmaCh04G016040.1 Cma04g01604 292685

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma04g01604 1474 MobiDBLite consensus disorder prediction 1046 1065 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 43 66 - -
Cma04g01604 1474 ProSiteProfiles PAH domain profile. 372 441 IPR003822 GO:0006355
Cma04g01604 1474 ProSiteProfiles PAH domain profile. 67 137 IPR003822 GO:0006355
Cma04g01604 1474 MobiDBLite consensus disorder prediction 1110 1144 - -
Cma04g01604 1474 Gene3D Paired amphipathic helix 73 135 IPR036600 GO:0006355
Cma04g01604 1474 SMART hdac_interact2seq4b 536 636 IPR013194 -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 838 881 - -
Cma04g01604 1474 SUPERFAMILY PAH2 domain 151 222 IPR036600 GO:0006355
Cma04g01604 1474 Pfam C-terminal domain of Sin3a protein 1183 1431 IPR031693 -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 949 971 - -
Cma04g01604 1474 Pfam Paired amphipathic helix repeat 91 134 IPR003822 GO:0006355
Cma04g01604 1474 Pfam Paired amphipathic helix repeat 176 220 IPR003822 GO:0006355
Cma04g01604 1474 Pfam Paired amphipathic helix repeat 394 438 IPR003822 GO:0006355
Cma04g01604 1474 Coils Coil 482 502 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 41 66 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 1074 1150 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 856 881 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 252 327 - -
Cma04g01604 1474 PANTHER PAIRED AMPHIPATHIC HELIX PROTEIN SIN3-LIKE 2 ISOFORM X1 510 1450 - -
Cma04g01604 1474 PANTHER PAIRED AMPHIPATHIC HELIX PROTEIN SIN3-LIKE 2 ISOFORM X1 30 468 - -
Cma04g01604 1474 PANTHER SIN3B-RELATED 30 468 IPR039774 GO:0003714
Cma04g01604 1474 PANTHER SIN3B-RELATED 510 1450 IPR039774 GO:0003714
Cma04g01604 1474 Gene3D Paired amphipathic helix 369 442 IPR036600 GO:0006355
Cma04g01604 1474 MobiDBLite consensus disorder prediction 243 356 - -
Cma04g01604 1474 SUPERFAMILY PAH2 domain 66 136 IPR036600 GO:0006355
Cma04g01604 1474 Gene3D Paired amphipathic helix 151 224 IPR036600 GO:0006355
Cma04g01604 1474 MobiDBLite consensus disorder prediction 1446 1461 - -
Cma04g01604 1474 MobiDBLite consensus disorder prediction 1440 1465 - -
Cma04g01604 1474 ProSiteProfiles PAH domain profile. 153 223 IPR003822 GO:0006355
Cma04g01604 1474 MobiDBLite consensus disorder prediction 469 496 - -
Cma04g01604 1474 SUPERFAMILY PAH2 domain 370 439 IPR036600 GO:0006355
Cma04g01604 1474 Pfam Sin3 family co-repressor 538 629 IPR013194 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma04g01604 K11644 SIN3A; paired amphipathic helix protein Sin3a - csv:101208532 2610.48
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma04g01604 Cma-Chr4:8095595 Cma05g00912 Cma-Chr5:7247960 0 dispersed
Cma04g00310 Cma-Chr4:1529110 Cma04g01604 Cma-Chr4:8095595 0 wgd
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi1g802 . Blo16g01142 . Bda11g01246 Bpe13g01441 Bpe10g00817 . Bma15g00207 Cmo04g01680 . . . . . Sed01g4034 . Cpe01g01419 Bhi07g01656 Tan04g1162 . . . . . Cla05g02504 Cam05g2688 Cec05g2721 Cco05g2756 Clacu05g2691 Cmu05g2545 Cre05g2660 Cone13ag1005 Cone19ag0999 Cone8ag0633 Cone12ag0617 Lsi04g00502 Csa05g02381 Chy10g00946 Cme10g00481 . . Bda07g01576 Bda11g01246 Bpe11g01747 . Bma01g00071 . . . . Cma04g01604 . Car04g01646 . . . . . . . . . . . . . . . . . . Csa05g01727 Chy09g00667 .
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0003861 2 2 2 2 2 1 2 1 1 1 1 1 2 1 1 2 1 3 2 1 1 1 1 1 1 1 1 3 2 2 45
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
34886 PF16879 Sin3a_C 6.40E-58 No_clan Cma TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma04g01604 Cma_Chr04 FPKM 19.659868 22.96488 21.350471 20.010719 22.733116 22.647234 23.88645 25.291464 21.871138 23.04307