Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00502 ATGGCGGGAGGGGGAAGTACCCAGAAATTAACCACTAATGACGCCCTAGTATATCTCAAGAGAGTGAAGGACATATTTCAAGACAAGAGACAACAGTATGAAGACTTCCTTGAAGTTATGAAAGATTTCAAGGCCCAAAGAATTGATACTGCGGGAGTCATTGCAAGAGTAAAAGATTTGTTTAAAGGCCATCGAGATCTCATTTTGGGCTTCAATACGTTCTTGCCCAAAGGATATGAGATCACTCTCCCACTAGAGGATGATCAACCTACACAAAAGAAACCTGTTGAGTTTGAAGAAGCTATCAATTTTGTGAACAAGATAAAGACACGATTTCAAGGCGATGATCATGTTTATAAATCATTTTTAGACATTTTAAATATGTACAGAAAGGAAAACAAGTCCATCACTGAGGTCTACCAGGAGGTTGCTGCACTTTTCCAAGAACATCCAGACTTGCTTGTTGAGTTTACTCATTTTCTTCCAGATTCTTCAGCCACAGGATCTGTTCACTACAGCTCTGGAAGGGGTCTAATGCTTCGTGATAGGCATTCTGCCATGCCCAGTATGCGGCAAATGCAAGTTGACCGGAAAGACCGAACTATTGTGTCCCATGCCGAACGTGACCTTAGTGTTGACCGTCCAGAACCAGACCATGATAGGGCCCTAATGAAACTGGACAAAGATCAACGTAGGCGTGGTGATAAGGAAAAGGAAAGAAGAGACGATAGAGATAGGAGAGAACATGATCGGGATAGGGTTGACAGAGACTACGAGCATGATGGAAGGAGGGACTTTAACATGCATCGGTTTACCCACAAGAGGAAATCCGCACGTAGGATTGACGAGTCATCTGCAGAGCAATTGCATCCAGGTGGAGAAGGTGACGAAAATTTTGGCGTACATCCCGTCTCTTCTTATGATGATAAAAATTCTGCAAAGAGTTTATACAGTCAGGAGTTTGCTTTCTGTGAAAGAGTTAAAGAGAAGTTGCGGAATGCTGAAGATTACCAGGAATTTTTGAAATGTCTCCATATCTATAGCAAGGAGATAATTACCAGAGCAGAACTTCAATGTTTGATGGGTGATTTACTTGGAAGATATTCTGATCTTATGGATGGTTTCAATGAATTTTTGACGCGATGCGAGAGGAATGATGGATTTCTTGCTGGTGTCATGAGTAGAAAGTCATTATGGAATGAAGGAAGTTTGCCTAGAACAGTGCAAGTGGAGGATAGGGACAGAGATAGAGATCGTGACCGTGAGAAAGAAGATATTTCTAAAGATAGAGATCGTGAAAATCGAGAAAGAGATAGACTTGAAAAGAGTGCTGCATTTGGAAGTAAAGATATAGGTCACAGAATGTCTGTATTTTCTAGCAAAGACAAGTATTTGGCAAAGCCAATAAATGAACTTGATTTATCGAACTGCGAACGATGCACTCCCAGTTACCGCCTTCTGCCAAAAAATTATCCAATACCTTCGGCCAGCCAAAGAACAGATCTTGGTGATCAGGTGTTGAATGATCACTGGGTATCTGTCACTTCAGGAAGTGAGGATTACTCCTTTAAACATATGCGCAAAAACCAGTATGAAGAGAGCCTTTTCCGATGTGAAGACGACAGGTTTGAACTCGACATGTTGCTGGAGTCTGTGAATGTGACTACTAAGCGTGTTGAAGAACTCCTTGAAAAGATCAACAACAATGTGATCAAAGTAGATTGTCCAATCACAATTGAGGATCACCTCACTGCTCTAAATCTGAGGTGCATTGAACGGTTGTACGGTGACCATGGGCTTGATGTTATGGATGTGTTGAGGAAGAATGCGCCTCTTGCTCTGCCAGTTATTTTGACCCGATTGAAGCAGAAACAGGAAGAATGGGCACGGTGTCGTTACGACTTCAATAAAGTTTGGGCTGATATATATGCTAAGAACTATCATAAGTCACTTGATCATCGTAGCTTCTACTTCAAGCAGCAAGACACAAAAAGTTTGAGCACCAAAGCCTTGTTGGCAGAGATCAAAGAGATCAGTGAGAAGAAGCGGAAGGAAGATGATGTGTTGCTTGCTATTGCTGCTGGAAATAGACGACCCATAATTCCGAATTTGGAATTTGAGTATCCTGATCCAGAGCTTCATGAAGATCTATATCAGCTAATCAAATATTCTTGTGGAGAAGTTTGCTCAACAGAACAAGTAGATAAGGTTATGAAGGTATGGACAACCTTCCTGGAGCCCATGCTTGGTGTTCCTTCCCGACCTCATGGTGCTGAGGACACTGAAGATGTTATTAAAGCAAAGACTCATCCTACCAAGAGTGCTACTGTAGTAGAGAGTGATGGAAGTCCTGGTGGGGGTGCTACTGTGATGCACCCAAAACAATTGAATTCTTCTAGAAATGGAGATGAAAGTATTCCACCTGAACAATCAAGTTCTTGTAGGACTTGGCCTTTGAATGGGGACAATGGAATCAAAGACGACAGTTTCCATGATGCAGATCGTATTGTACGGAAGGGAGATGCTTTCTGCAGTATTTCCCAACACGCTAAAATTCAGGATAATGCACCTGTGACTGATGAATTGTCTGGAGTAAGTAAACAAGACAATTCTACCGAATGCTTTGTCAATTCAAATGTATCCCTTGCAACGGCAGCCGAGCAGAGTAATGGGAAAACTAACATAGAAAACACATCAGGATTGAGCACTACTCCTTCACGACTTGGAAATGGAGCTGTTGAGAGTGGAATTGAGTTACCTTCCTCAGAGGTTGGTGGCCCTACAAGACAAAGTGTAACTGCAAATGGCACAGTCGCAGATGGCACCAAAGGCCATAGATACGCTGAAGAGTCTGTCAGACACTTGAAGATAGAAAGGGAAGAGGGTGAATTATCTCCAAACGGTGATTTTGAAGAAGATAATTTTGCCAATTACGATGGGGAGTTGAAAGCTTTGCCAAAAGTGAAGGAAGGTGTTGCTGGCAGGCAATATCCAAGCACCCGAGGGGAGGACGAATTATGTTGCAGAGAGGCTGGTGGAGAAAATGATGCTGATGCTGATGATGAAGGGGAGGAAAGTGCTCAAAGGTCATCTGAGGATAGTGAAAATGCCTCTGAGAATGGCGATGTTTCTGCAAGTGATTCCGGTGATGGAGAGGATTGTTCTCGTGAAGATCATGAGGATGGAGAACATGATGATAATAAGGCTGAGAGTGAAGGTGAGGCAGAAGGGATGGCCGATGCCCATGATGTAGAAGGAGATGGAGCATCTATACCGTTCTCTGAACGCTTTCTATTGACTGTAAAGCCTCTTGCCAAGCATGTTCCTCCTGCGTTGCATGAAGAAGGAAAGGAGTCTCATGTATTTTATGGAAATGACTCTTTTTATGTGCTTTTTAGGCTCCACCAAACACTGTATGAGAGAATACAATCTGCGAAGATCAACTCTTCATCCTCAGAGAGGAAATGGAGGGCCTCAAATGATACAACCCCCACAGATCTTTATGCCAGGTTCATGAATGCACTTTATAGTCTACTGGACGGTTCCTCTGATAACACAAAGTTTGAGGATGATTGCCGAGCCACTATTGGAACCCAGTCATATGTTCTGTTCACATTAGACAAACTAATCTATAAACTTGTCAAACAGCTTCAAACAGTTTCCTCAGATGAGATGGATAACAAACTTCTCCAACTATATGCGTACGAAAAATCAAGAAAAATGGGAAGATTTGTTGATGCAGTTTATCATGAAAATGCTCGTGTACTTCTTCATGATGAGAATATCTATCGTATAGAACGATCATCCACTCCTACTCATCTTTCCATTCAGCTTATGGACTATGGCTACGATAAGCCTGAAGTAACTGCTGTTTCCATGGACCCCATTTTTTCATCTTATCTGCATAATGACTTCTTCTCAGTTCTCCCTGAGAAAAAGGTGAAGTCAGGGATCTTCTTGAAGAGAAACAAACGTAAATATGCCTGTGGCGATGAGAATTCTGCCGCATGCCATGCTTTGGAAGGGCTTAAAATTGTTAATGGTCTGGAGTGTAAAATTGCTTGCAATTCGTCAAAGGTTTCATACGTTTTAGATACAGAGGACTTTTTATTTCGTAGAAATAGCAAAAGGAAACGCCTGCATGGAAATAGCTCATGCCACAGCCAGTCAAGGTCTTCTAGTGGCGATTCAATAACTTTTAACGGAGGCACTGGAAACCTGAAAAAATGCAAAGTTTGGGGCATAGTGAAGCGGGTATTTTGCATTACCTTTACTGTATTCTTATTTATATCTGAGCCTCACCATGAAAATAAGGCATTGGGAGGAGATATAGCTCGATGGTTATTGCATTTACTGAGTTTAGTGGCTCACTGA 4374 42.07 MAGGGSTQKLTTNDALVYLKRVKDIFQDKRQQYEDFLEVMKDFKAQRIDTAGVIARVKDLFKGHRDLILGFNTFLPKGYEITLPLEDDQPTQKKPVEFEEAINFVNKIKTRFQGDDHVYKSFLDILNMYRKENKSITEVYQEVAALFQEHPDLLVEFTHFLPDSSATGSVHYSSGRGLMLRDRHSAMPSMRQMQVDRKDRTIVSHAERDLSVDRPEPDHDRALMKLDKDQRRRGDKEKERRDDRDRREHDRDRVDRDYEHDGRRDFNMHRFTHKRKSARRIDESSAEQLHPGGEGDENFGVHPVSSYDDKNSAKSLYSQEFAFCERVKEKLRNAEDYQEFLKCLHIYSKEIITRAELQCLMGDLLGRYSDLMDGFNEFLTRCERNDGFLAGVMSRKSLWNEGSLPRTVQVEDRDRDRDRDREKEDISKDRDRENRERDRLEKSAAFGSKDIGHRMSVFSSKDKYLAKPINELDLSNCERCTPSYRLLPKNYPIPSASQRTDLGDQVLNDHWVSVTSGSEDYSFKHMRKNQYEESLFRCEDDRFELDMLLESVNVTTKRVEELLEKINNNVIKVDCPITIEDHLTALNLRCIERLYGDHGLDVMDVLRKNAPLALPVILTRLKQKQEEWARCRYDFNKVWADIYAKNYHKSLDHRSFYFKQQDTKSLSTKALLAEIKEISEKKRKEDDVLLAIAAGNRRPIIPNLEFEYPDPELHEDLYQLIKYSCGEVCSTEQVDKVMKVWTTFLEPMLGVPSRPHGAEDTEDVIKAKTHPTKSATVVESDGSPGGGATVMHPKQLNSSRNGDESIPPEQSSSCRTWPLNGDNGIKDDSFHDADRIVRKGDAFCSISQHAKIQDNAPVTDELSGVSKQDNSTECFVNSNVSLATAAEQSNGKTNIENTSGLSTTPSRLGNGAVESGIELPSSEVGGPTRQSVTANGTVADGTKGHRYAEESVRHLKIEREEGELSPNGDFEEDNFANYDGELKALPKVKEGVAGRQYPSTRGEDELCCREAGGENDADADDEGEESAQRSSEDSENASENGDVSASDSGDGEDCSREDHEDGEHDDNKAESEGEAEGMADAHDVEGDGASIPFSERFLLTVKPLAKHVPPALHEEGKESHVFYGNDSFYVLFRLHQTLYERIQSAKINSSSSERKWRASNDTTPTDLYARFMNALYSLLDGSSDNTKFEDDCRATIGTQSYVLFTLDKLIYKLVKQLQTVSSDEMDNKLLQLYAYEKSRKMGRFVDAVYHENARVLLHDENIYRIERSSTPTHLSIQLMDYGYDKPEVTAVSMDPIFSSYLHNDFFSVLPEKKVKSGIFLKRNKRKYACGDENSAACHALEGLKIVNGLECKIACNSSKVSYVLDTEDFLFRRNSKRKRLHGNSSCHSQSRSSSGDSITFNGGTGNLKKCKVWGIVKRVFCITFTVFLFISEPHHENKALGGDIARWLLHLLSLVAH 1457
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4648785 4661373 + Lsi04G005020.1 Lsi04g00502 660551

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00502 1457 Coils Coil 423 443 - -
Lsi04g00502 1457 SMART hdac_interact2seq4b 476 576 IPR013194 -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 409 440 - -
Lsi04g00502 1457 Pfam C-terminal domain of Sin3a protein 1122 1370 IPR031693 -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 886 941 - -
Lsi04g00502 1457 PANTHER PAIRED AMPHIPATHIC HELIX PROTEIN SIN3-LIKE 2 ISOFORM X1 6 409 - -
Lsi04g00502 1457 Gene3D Paired amphipathic helix 14 76 IPR036600 GO:0006355
Lsi04g00502 1457 ProSiteProfiles PAH domain profile. 8 78 IPR003822 GO:0006355
Lsi04g00502 1457 PANTHER SIN3B-RELATED 6 409 IPR039774 GO:0003714
Lsi04g00502 1457 PANTHER SIN3B-RELATED 451 1390 IPR039774 GO:0003714
Lsi04g00502 1457 PANTHER PAIRED AMPHIPATHIC HELIX PROTEIN SIN3-LIKE 2 ISOFORM X1 451 1390 - -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 924 938 - -
Lsi04g00502 1457 Gene3D Paired amphipathic helix 310 383 IPR036600 GO:0006355
Lsi04g00502 1457 ProSiteProfiles PAH domain profile. 313 382 IPR003822 GO:0006355
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 1049 1083 - -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 886 910 - -
Lsi04g00502 1457 Gene3D Paired amphipathic helix 92 165 IPR036600 GO:0006355
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 186 252 - -
Lsi04g00502 1457 ProSiteProfiles PAH domain profile. 94 164 IPR003822 GO:0006355
Lsi04g00502 1457 SUPERFAMILY PAH2 domain 312 380 IPR036600 GO:0006355
Lsi04g00502 1457 SUPERFAMILY PAH2 domain 7 77 IPR036600 GO:0006355
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 771 819 - -
Lsi04g00502 1457 Pfam Paired amphipathic helix repeat 335 379 IPR003822 GO:0006355
Lsi04g00502 1457 Pfam Paired amphipathic helix repeat 117 161 IPR003822 GO:0006355
Lsi04g00502 1457 Pfam Paired amphipathic helix repeat 32 75 IPR003822 GO:0006355
Lsi04g00502 1457 Coils Coil 549 569 - -
Lsi04g00502 1457 Pfam Sin3 family co-repressor 478 569 IPR013194 -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 193 252 - -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 792 819 - -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 269 305 - -
Lsi04g00502 1457 MobiDBLite consensus disorder prediction 1011 1088 - -
Lsi04g00502 1457 SUPERFAMILY PAH2 domain 92 163 IPR036600 GO:0006355
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00502 K11644 SIN3A; paired amphipathic helix protein Sin3a - csv:101208532 2610.87
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g01745 Lsi-Chr2:23131553 Lsi04g00502 Lsi-Chr4:4648785 2.60E-110 dispersed
       

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
25141 PF16879 Sin3a_C 9.40E-58 No_clan Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00502 Lsi_Chr04 FPKM 4.242038 3.280707 2.886142 2.505901 6.356405 7.278146 5.348865 10.86302 9.984486 10.187329