Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo06g00731 ATGAATTTCGCTGGAGGCTTTCGATCGGGCCAGAAGGCGATGAACCATATGGAAGACGAACAGGATAGCGAGCTACAAATTCCATCTGGTGTCCTTGTCGGCGTAAACTTTAGTGTCTCAACTCAGCAAGATATGGAGAATATAGCAGTGATAAACATTGAGGCAGCCTGCGAGGTGTCTGATCCTAAGTTGGGACTTCCTAATCCATCTTATCAGTGCACTACATGTGGTGCGAGCGTTCTCAAATGTTGTGAAGGTCATTTTGGGGCTATCAAATTTCCGTATACTATAATCCATCCGTATTTTCTCTCGGAAGTTGCACAAGTGTTGAATAAAGTTTGTCCAGGGTGTAAATCTATCCGGCGGGAACTATGGGGCAAGGTTGAGGATCCCACGTCTGATTTTCATCGACCTAAAGGTTGCAGATATTGTTTTGGAAGTCTTAAGGATTGGTACCCGCCTATGAGGTTTAAGCTTTCAACTACTGATATGTTCAGAAAAAGTATGATTATGGTGGAAGTGAAAGAAAACATGTCGAAGAAGTACCAAAAGAGGGTGGCTAGGGGAGGATTGCCTCCTGATTATTGGAATTTTATCCCGAAAGATGAACAGCAGGAGGAAAGTTATTGTAGACCGAACAGGAAAGTTCTAACACATGCTCAGGTCCATTATTTGTTGAAAGACATCGACCCAAAATTTCTTAAAAAGTTCGTGTCTGCGACAGATTCATTGTTTCTAAACTCTTTCCCTGTGACTCCAAACTGTCATCGTGTGACTGAAATGACACATTCATTTTCAAGTGGACAGCGTTTGGTCTTTGATGAAAGGACCAGGGCTTACAAGAAGCTGGTTGATTTCAGAGGGACAGCTAACGAGTTAGGTTCTCGTGTTCTCGATTGTCTCAAAATTTCCAAGCTTAGCCCAGAGAAGTTAGAAAGTAAAGATTTGATTTACCAGCAAAAGAAAATTAAGGATACTGCTACTAGCTCAAATGGTTTGAGATGGATCAAAGATGTTGTTCTTGGAAAGCGGAGTGACCATTGTTTCCGCATGGTTGTTGTTGGTGATCCAAACATTGAGTTAAGTGAAATTGGTATACCTTGTCATGTTGCAGAGCGGTTGCAAATATCCGAGCATCTGAGTTCTTGGAATATGAAGAAACTAAGCACTTCTTGTTACCTTCGTCTTGTTGAAAAGGGAGAGATTTTTGTTCGTCGTGAAGGTCGTCTGGTTCGTGTACGTCACGTTCTTGAACTTAGTATGGGGGATACTATATATAGGCCCCTAGCTGATGGGGATGTTGTATTGGTTAATCGACCTCCATCCATACATCAACACTCACTTATTGCCCTATCTGTCAGGGTTCTTCCAGTCTCCTCAGTTCTTTCCTTAAACCCACTTTGTTGTTCTCCTTTCCGTGGAGATTTCGATGGCGATTGCCTTCACGGTTATGTTCCTCAATCACTTGAGGCCCGAGTGGAGCTTAGAGAGCTGGTTGCACTAGATAGACAGCTAGTCAATGGCCAAAGTGGTAGAAATCTGCTGTCACTTAGTCATGATAGTTTAACTGCTGCTCATTTAATTATGGAAGATGGAGTTTCTTTAAATCTTTTCCAAATTCAGCAGTTGCAAATGTTTGCTTTACATCAGTTGTTGCCCCCAGCAATTGTAAAAGCTCCTTCATTTAGAAGTTGTGCATGGACAGGAAAACAATTATTCAGCATCTTTCTACCTCCTGATTTTGATTATTCTTCTCCGTCTCATCGTGTTCACATTAAAAATGGAGAACTTCTATCTTCTGAAGGATCTTATTGGCTTCGCGACACTGGCAGAAACCCTTTTCAAGCTCTGATAGAACATTGTGAGGGAAGGACCCTGAACTACTTGCACATCGCTCAAAGAGTTCTTTGTGAATGGTTATCAATGAGGGGATTGAGTGTTTCACTATCAGATTTGTATCTCTCAGTCGATTCACACTCACATAAAAACATGATGGATGATATCTTTTGTGGGTTACAAGAAGCGGAGGAAACGTGTAATTTAATACAGCTGATGGTGGATTCACATAAAGATGTCCTTACTGGAGATGATGAAGGTAATCAACACGTGCTATCTATCGAAGTGGAGCATTTAAGTTATGAGAAGCAGAAATCTGCTGCTCTAAATCAAGCTTCGGTTGATGCTTTCAAGAGAGTTTTCCGTGAGATACAAAATCTTGTGTACAAGTATTCTGGAAAAGACAATTCACTTTTAACCATGTTCAAGGCTGGAAGCAAGGGTAATTTGTTGAAATTAGTTCAGCATAGCATGTGTCTTGGCTTGCAACACTCTTTGGTTACTCTGTCCTTCGGCCTTCCACATAAACTCTCATGTTCTTCATGGAATAGTCAAAAGATGCCTCGTTATATTCAGAAGGATGGTCTTGCTGACCGTACTCAGTCTTTCATCCCTTATGCTGTGGTTGAAAATTCCTTTCTCTCAGGGCTTAATCCTTTCGAGTGTTTTGCTCATTCAGTGACAAATCGAGATAGCTCTTTCAGTGACAATGCTGAAGTTCCTGGGACTTTGACACGAAAACTAACATTTCTAATGCGGGATATATATAATGCATATGATCGAACAGTGAGGAATGCATATGGAAATCAACTGGTTCAGTTTTCTTATGATACTGATAGCCCCATGAGCACCTCTAATGAATTGGATGGTGAGAATAATAATACAAATCGTGATATCGGTGGTCAGCCTGTTGGTTCATTGGCTGCTTGTGCCCTTTCAGAAGCTGCATACAGTGCTTTGGACCAACCAATTAGTCTACTTGAAACTTCTCCATTGCTAAACCTTAAGAAAGTGCTGGAGTGTGGTTCAAAGAGGAATAGTCCCAAACAAACATTTTCCTTGTTCTTATTGGAGAAACTTTCGAAACGAAGTTATGGATTCGAGTATGGAGCTTTAGGAGTCAAGAACCATTTAGAAAGAGTAATCTTTAAAGATATTGTGTCTAGTGTTATGATTATCTTCGCCCCAGAGCCCTCCCGGAAAAGACATTTTAGTCCATGGGTTTGCCACTTTCATGTATGCAAGGAAATTTTGAAGAAAAGAAGATTGAAAATTAGTTCCGTCATCCATTCCCTTAATATGCGGTGCGACTCTGTGAGACAAGAAGCAAAAATAAATTTGCCCTTTTTGCACATATCTACCCAGGATTGTTCTCTAGCTGATTCATCGAGAGAAGATGGTGATACCGTGTGCTTAACTGTTACAATAGCTGAAAACACAAAAAACTCTTTCCTGCAATTAGATTTCATTCAAGATTTGCTGATTCATTTCCTTCTTGGTACAGTTATAAGAGGCTTTGCTGAGATTGACAAGGTAGATATTTCATGGAATGACCGACCAAAGGTACCAAAACCTCATTGTAAATCTCATGGGGAGCTCTACTTGCGAGTGACCATGTCGGGAGAAGGAAATTCTAGATTCTGGGCAACTCTTATGAATCATTGCCTCCCGATAATGGATTTGATCGATTGGTCTCGTAGTCATCCAGATAACATCCATAGTTTCTGCATGGCATATGGAATAGATTCTGGAAGGAATTACTTTCTCAACAGTTTGGAGTCTGCAACATTGGATATCGGTAAAACAATACGTCATGAACATTTGCTGCTCGTTGCAAATACTCTTTCGGCTACCGGAGAGTTTGTTGGCTTAAATGTTAAAGGAGTATCACGGCAAAGGGAACATGCTTTGGTCAAAACGCCCTTTATGCAAGCTTGCTTCTCAAGTCCTGGTGCTTCCTTTGTTAAAGCTGCTAAGGCTGGAATTAAGGACAGTCTTTCAGGAAGTCTAGACGCCTTGGCGTGGGGGAAAATACCTTCTATGGGAACCGGGGGACAGTTCGATATCCTTTACTCTGGGAAGGGGCACGAGCTTAATAAGCCCGTCGATGTTTATAATCTACTGGGTAGCCAAGGCATTTGTGAGAAGCCGAACGTGAAGATTGAATCTCTTGATAAAAACACTATTTATGAGAAATATAGTGCTGTAGTGCATAAAAATGGTGGCTCTACCATTAAAGGACTTAAAAAGCTGGATAGTGTTTCTAAATCAATTTTAAGGGAGTTCTTGACATTGAATGATATTCAGAAGCTGTCTCATACATTGAGAAGCATTTTACGCAAGTATTCTTTAAATGAAAGATTAAATGAAGTGGACAAGTCAACTTTGATGATGGCTTTATACTTTCATCCTCAAAGGGATGAAAAAATTGGCGTTGGAGCTCAGGATATAAAGGTTGGTAGCCACTCAAAATACTCAAATACGCGTTGCTTCATATTGGTACGATCAGACGGGACGACAGAAGATTTCTCTTATCACAAGTGTGTTTTAGGTGCGTTGGAGATCATTGCACCTCATCGAGTGAAGGCATATCAGTCAAAATGGATGCAAGACAAGTTCGAGTGA 4461 40.84 MNFAGGFRSGQKAMNHMEDEQDSELQIPSGVLVGVNFSVSTQQDMENIAVINIEAACEVSDPKLGLPNPSYQCTTCGASVLKCCEGHFGAIKFPYTIIHPYFLSEVAQVLNKVCPGCKSIRRELWGKVEDPTSDFHRPKGCRYCFGSLKDWYPPMRFKLSTTDMFRKSMIMVEVKENMSKKYQKRVARGGLPPDYWNFIPKDEQQEESYCRPNRKVLTHAQVHYLLKDIDPKFLKKFVSATDSLFLNSFPVTPNCHRVTEMTHSFSSGQRLVFDERTRAYKKLVDFRGTANELGSRVLDCLKISKLSPEKLESKDLIYQQKKIKDTATSSNGLRWIKDVVLGKRSDHCFRMVVVGDPNIELSEIGIPCHVAERLQISEHLSSWNMKKLSTSCYLRLVEKGEIFVRREGRLVRVRHVLELSMGDTIYRPLADGDVVLVNRPPSIHQHSLIALSVRVLPVSSVLSLNPLCCSPFRGDFDGDCLHGYVPQSLEARVELRELVALDRQLVNGQSGRNLLSLSHDSLTAAHLIMEDGVSLNLFQIQQLQMFALHQLLPPAIVKAPSFRSCAWTGKQLFSIFLPPDFDYSSPSHRVHIKNGELLSSEGSYWLRDTGRNPFQALIEHCEGRTLNYLHIAQRVLCEWLSMRGLSVSLSDLYLSVDSHSHKNMMDDIFCGLQEAEETCNLIQLMVDSHKDVLTGDDEGNQHVLSIEVEHLSYEKQKSAALNQASVDAFKRVFREIQNLVYKYSGKDNSLLTMFKAGSKGNLLKLVQHSMCLGLQHSLVTLSFGLPHKLSCSSWNSQKMPRYIQKDGLADRTQSFIPYAVVENSFLSGLNPFECFAHSVTNRDSSFSDNAEVPGTLTRKLTFLMRDIYNAYDRTVRNAYGNQLVQFSYDTDSPMSTSNELDGENNNTNRDIGGQPVGSLAACALSEAAYSALDQPISLLETSPLLNLKKVLECGSKRNSPKQTFSLFLLEKLSKRSYGFEYGALGVKNHLERVIFKDIVSSVMIIFAPEPSRKRHFSPWVCHFHVCKEILKKRRLKISSVIHSLNMRCDSVRQEAKINLPFLHISTQDCSLADSSREDGDTVCLTVTIAENTKNSFLQLDFIQDLLIHFLLGTVIRGFAEIDKVDISWNDRPKVPKPHCKSHGELYLRVTMSGEGNSRFWATLMNHCLPIMDLIDWSRSHPDNIHSFCMAYGIDSGRNYFLNSLESATLDIGKTIRHEHLLLVANTLSATGEFVGLNVKGVSRQREHALVKTPFMQACFSSPGASFVKAAKAGIKDSLSGSLDALAWGKIPSMGTGGQFDILYSGKGHELNKPVDVYNLLGSQGICEKPNVKIESLDKNTIYEKYSAVVHKNGGSTIKGLKKLDSVSKSILREFLTLNDIQKLSHTLRSILRKYSLNERLNEVDKSTLMMALYFHPQRDEKIGVGAQDIKVGSHSKYSNTRCFILVRSDGTTEDFSYHKCVLGALEIIAPHRVKAYQSKWMQDKFE 1486
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 3749259 3760934 + CmoCh06G007310.1 Cmo06g00731 384293

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo06g00731 1486 Gene3D - 337 508 - -
Cmo06g00731 1486 Pfam RNA polymerase Rpb1, domain 3 505 652 IPR007066 GO:0003677|GO:0003899|GO:0006351
Cmo06g00731 1486 SMART rpolaneu7 242 529 IPR006592 GO:0003677|GO:0003899|GO:0006351
Cmo06g00731 1486 CDD RNAP_IV_RPD1_N 40 876 IPR040403 -
Cmo06g00731 1486 PANTHER DNA-DIRECTED RNA POLYMERASE 17 1368 IPR045867 GO:0003899|GO:0006351
Cmo06g00731 1486 Pfam RNA polymerase Rpb1, domain 2 342 499 IPR000722 GO:0003677|GO:0003899|GO:0006351
Cmo06g00731 1486 Gene3D RNA polymerase Rpb1, domain 3 509 657 IPR042102 -
Cmo06g00731 1486 Gene3D RNA polymerase II, clamp domain 28 125 IPR044893 -
Cmo06g00731 1486 Pfam RNA polymerase Rpb1, domain 4 721 777 IPR007083 GO:0003677|GO:0003899|GO:0006351
Cmo06g00731 1486 SUPERFAMILY beta and beta-prime subunits of DNA dependent RNA-polymerase 26 1303 - -
Cmo06g00731 1486 Gene3D RNA polymerase ii 375 427 - -
Cmo06g00731 1486 Gene3D - 1371 1463 - -
Cmo06g00731 1486 PANTHER DNA-DIRECTED RNA POLYMERASE IV SUBUNIT 1 17 1368 - -
Cmo06g00731 1486 Gene3D - 674 829 IPR038120 -
Cmo06g00731 1486 Pfam Protein of unknown function (DUF3223) 1389 1461 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo06g00731 K16250 NRPD1; DNA-directed RNA polymerase IV subunit 1 [EC:2.7.7.6] - csv:101214578 2633.21
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo04g02299 Cmo-Chr4:17106160 Cmo06g00731 Cmo-Chr6:3749259 1.25E-14 dispersed
Cmo04g02300 Cmo-Chr4:17108073 Cmo06g00731 Cmo-Chr6:3749259 1.83E-10 dispersed
Cmo06g00731 Cmo-Chr6:3749259 Cmo16g01305 Cmo-Chr16:9276354 7.18E-44 dispersed
Cmo09g00252 Cmo-Chr9:1134708 Cmo06g00731 Cmo-Chr6:3749259 6.74E-10 dispersed
Cmo11g00165 Cmo-Chr11:817216 Cmo06g00731 Cmo-Chr6:3749259 3.35E-06 dispersed
Cmo06g00731 Cmo-Chr6:3749259 Cmo06g00128 Cmo-Chr6:705635 4.81E-45 transposed
       

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
Vvi2g409 . . Bda06g00069 . . Bpe07g00129 . . Cmo06g00731 . . . . . . . . . . . . . . . Cla10g00343 Cam10g0357 Cec10g0371 Cco10g0365 Clacu10g0358 Cmu10g1195 Cre10g0608 . . Cone6ag0744 Cone9ag0748 Lsi07g01394 . . Cme06g02680 . . . . . . . Bma12g00105 . . . . . Car06g00635 . Cpe08g00802 . . . . . . . . . . . . . . . . Csa03g00363 Chy06g01960 .
       

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
OG0005483 2 9 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 1 2 1 40
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cmo06g00731 Cmo_Chr06 FPKM 21.185282 22.740267 18.641325 19.740559 45.187298 40.514679 47.131432 26.820362 27.458313 29.62318