Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g00400 ATGGACGCGACAATTGACTTCTCTAACAATAGCTACGCTACTCCCAATGGACTGTATTATGGGAGACGTAAGAGACTAAAATTATCTACTGATGGAAAAGATTTTCCTAGCACTGCCACCTTTTCTGCCCAAAAATGTGACACACCAAGACAAAACAAAATGAAGAACTCAGCAAAAATAATTGATTACTCAGATCCGTTTGCCATTAATAATTTGATTGATGGTTTGGATTGTGGTCAGTTTGGAAGTGTCACTAAAGAGATAGAAGCCCTTGTTTCCCGTAAGATGCAAGTTCTAAGTCCTTACATTGCCAAGTATCCTACACTGTCAAGTATGTTATTTGATCTGGGGAGAAGTAGAGAGTGTACAGAAGCAATGAACAATCAAGCTTCCCAGTTGGTTCATAATCTCATTGATTTGGAGGATGATTCTATCACTAATGTTCATTCCAACAATGTTGAGAAATCACGATTGCCTATCGTAATAATTGATTCTGATGAGGAAGAAAGCAAAGATCAGAGGGTTATACATCCTTTTCAAGAGGTTGTGCTGCCTAGACCACCGGGACAAAGTTTGTTCAAGGACATAGCAGTAGTGGATCACCGAGTTTCCTGGGATCACCGAGCTTCAAATGGGGAGGAAGCAACTCCTATTAGTGAAAGTGAAACTATAAGTAAGAAGGACAAAGGTGTTTACGTTGGTGTAGAAGAGGATGAGGATGAGGTCAGTGAACAGGCTAACAGTGAGGACGATGGCCTTGGAGATATTTGGAACGATATGCAAATGGCATTAGAATGTGCCAAGGACTTGGATGCGGCTTTAGATTCATCATCTAACCAGCAAACTACAGATGCTGTGGACTGTGATCATTCTTTTCTCTTGAAGGATGATCTTGGTTATGTCTGTCGCATTTGTGGGGTTATTGACAGAGGAATTGAGACCATTTTTGAGTTTCAGTACAACAAGGGTAAGAGGAGCACAAGAACATACATGTCTGAATCTCGTAACAAAGATTCGGGCAATATTGTTGGAGTTAAAATTTCAGAAGATGATTTGACCGTAACTGAAATTTCTGCACATCCTAGGCATATGAAGCAAATGAAACCTCATCAAATTGAGGGTTTCAATTTCCTTATAAGCAACTTGGTAAGTGACAATCCAGGAGGCTGCATTTTGGCCCACGCTCCCGGATCTGGAAAAACATTTATGATTATCAGTTTCATGCAAAGTTTTTTAGCTAAGTATCCACAGGCTAGACCATTGGTTGTGCTTCCCAAGGGAATCTTGGCTACATGGAAAAAGGAGTTCCAGATTTGGCAAGTGGAAGATATTCCACTCTATGATTTCTATTCCGTTAAAGCAGATAATAGGGCTCAACAGCTGACAGTACTGAATCAGTGGGTTGAGCACAAAAGTATTCTGTTCTTAGGATACAAACAATTTTCCACCATCGTCTGCGATGTTGAGACCAGTGCTGCGTCAACTGCATGTCAAAATATATTGCTCCAGGTTCCTACGATTCTTATTCTAGATGAGGGGCATACACCAAGAAATGAGAACACTGATACTTTGCAAACTCTTGCCAAAGTCAGAACTCCACGAAAAGTGGTTCTTTCAGGAACCCTATATCAAAATCATGTTAAAGAGGTATTCAATATAGTGAATCTTGTTCGACCGAAGTTCATGAGATCAGAAACTTCTCGACCTATTATCAAACGTATCATGTCGAGAGTAGATATACCTGGTGTAAGGAAGCAGTTCAAAGCAGGTGTGGATTCTGCCTTTTATGATCTGGTGGAACATACACTTCAGAAGGATGCTGATTTTAGAAGGAAAGTGAGCGTCATCCATGATTTACGTGAGATGACCAGCAAGATTCTGCATTATTATAAAGGAGATTTTCTTGATGAGCTCCCTGGACTGGTTGACTTCACTGTGGTGCTAAATCTCACTTCTAAACAGAAGCATGAAGGTGAAAAAGTCAAAAAGTTTAACAGGAAGTTCAAAATAAGCTCTGCTGGTAGTGCTGTTTATTTGCATCCAAAGTTGAATATTTTCTCTGTTAATGCTGCTGTAACGGATGATAAAATAGATGAGGTCATTGATAAGATGGATGTTAGAGATGGAGTGAAGACAAAATTCTTTCTTAATATGCTGAATTTGTGCGCTACTACTGGGGAAAAGCTGCTGGTTTTCAGCCAATACCTTCTTCCTTTGAAATTCATGGAGAGATTGGTTGTGCAGAAGAAGGGTTGGAGTCCAGGGAAAGAAACCTTTATGATATCTGGTGAAACAACTCCTGAGCAACGGGAATGGTCGATGGAACGTTTCAACAACTCACCTGATGCCAGAGTCTTCTTTGGCTCCATTAAGGCTTGCGGGGAGGGTATATCTTTGGTAGGGGCATCGCGTATCATCATCTTGGATGTTCATCTCAATCCATCAGTGACCCGTCAAGCAATTGGCCGTGCATTCCGTCCTGGTCAAACAAAGAAAGTCTTTGCATATAGATTGGTGGCTGCTGATTCACCTGAAGAGGGAGATCACAGTACTTGTTTCAAGAAGGAACTGATAGCAAAGATGTGGTTTGAGTGGAATGAGTATTGCGGCTACCATGACTTTGAAGTGGAGACTGTCGACGTGAAACAGTGTGGCGATAATTTTCTAGAAACTCCACTTCTAGGACAAGATGTCAAAGTTCTGTACAGAAGGTCAGTTCGCTCTTTATTCTCAGTTGAGCTACTTTCATTGCAGAATCATTTTTCCTGA 2769 40.85 MDATIDFSNNSYATPNGLYYGRRKRLKLSTDGKDFPSTATFSAQKCDTPRQNKMKNSAKIIDYSDPFAINNLIDGLDCGQFGSVTKEIEALVSRKMQVLSPYIAKYPTLSSMLFDLGRSRECTEAMNNQASQLVHNLIDLEDDSITNVHSNNVEKSRLPIVIIDSDEEESKDQRVIHPFQEVVLPRPPGQSLFKDIAVVDHRVSWDHRASNGEEATPISESETISKKDKGVYVGVEEDEDEVSEQANSEDDGLGDIWNDMQMALECAKDLDAALDSSSNQQTTDAVDCDHSFLLKDDLGYVCRICGVIDRGIETIFEFQYNKGKRSTRTYMSESRNKDSGNIVGVKISEDDLTVTEISAHPRHMKQMKPHQIEGFNFLISNLVSDNPGGCILAHAPGSGKTFMIISFMQSFLAKYPQARPLVVLPKGILATWKKEFQIWQVEDIPLYDFYSVKADNRAQQLTVLNQWVEHKSILFLGYKQFSTIVCDVETSAASTACQNILLQVPTILILDEGHTPRNENTDTLQTLAKVRTPRKVVLSGTLYQNHVKEVFNIVNLVRPKFMRSETSRPIIKRIMSRVDIPGVRKQFKAGVDSAFYDLVEHTLQKDADFRRKVSVIHDLREMTSKILHYYKGDFLDELPGLVDFTVVLNLTSKQKHEGEKVKKFNRKFKISSAGSAVYLHPKLNIFSVNAAVTDDKIDEVIDKMDVRDGVKTKFFLNMLNLCATTGEKLLVFSQYLLPLKFMERLVVQKKGWSPGKETFMISGETTPEQREWSMERFNNSPDARVFFGSIKACGEGISLVGASRIIILDVHLNPSVTRQAIGRAFRPGQTKKVFAYRLVAADSPEEGDHSTCFKKELIAKMWFEWNEYCGYHDFEVETVDVKQCGDNFLETPLLGQDVKVLYRRSVRSLFSVELLSLQNHFS 922
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 6085441 6092395 + Lsi10G004000.1 Lsi10g00400 671957

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g00400 922 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 381 560 IPR014001 -
Lsi10g00400 922 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 507 866 IPR027417 -
Lsi10g00400 922 Pfam SNF2-related domain 386 601 IPR000330 GO:0005524|GO:0140658
Lsi10g00400 922 PANTHER PROTEIN CHROMATIN REMODELING 35 17 904 - -
Lsi10g00400 922 CDD SF2_C_SNF 695 839 - -
Lsi10g00400 922 Gene3D - 335 580 IPR038718 -
Lsi10g00400 922 PANTHER SNF2 DOMAIN-CONTAINING PROTEIN CLASSY 2-RELATED 17 904 IPR044567 GO:0080188
Lsi10g00400 922 SMART ultradead3 363 571 IPR014001 -
Lsi10g00400 922 SMART helicmild6 740 828 IPR001650 -
Lsi10g00400 922 ProSiteProfiles Superfamilies 1 and 2 helicase C-terminal domain profile. 717 882 IPR001650 -
Lsi10g00400 922 Gene3D - 639 877 IPR027417 -
Lsi10g00400 922 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 354 566 IPR027417 -
Lsi10g00400 922 Pfam Helicase conserved C-terminal domain 717 827 IPR001650 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g00400 K10875 RAD54L, RAD54; DNA repair and recombination protein RAD54 and RAD54-like protein [EC:5.6.2.-] - csv:101207775 1702.18
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00034 Lsi-Chr5:577055 Lsi10g00400 Lsi-Chr10:6085441 1.48E-85 dispersed
Lsi10g00400 Lsi-Chr10:6085441 Lsi01g00030 Lsi-Chr1:336558 9.82E-30 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
Vvi3g3 . Blo15g00679 Bda06g00991 . . . . Bma12g00550 . . Cma02g00375 Cma20g00824 Car02g00242 Car20g00710 Sed03g1723 . . Bhi05g01788 Tan02g2021 Cmetu03g0999 . . . . . . . . . . . Cone12ag1169 Cone8ag1217 . . Lsi10g00400 . Chy11g00351 . . Blo13g00542 . . . . . . Sed01g0278 Cmo02g00382 Cmo20g00835 . . . . Cpe16g00264 Cpe05g01280 Bhi10g01967 Tan05g1260 Cmetu11g0821 . . . . . . . . . . . . Csa02g01291 . Cme11g00153
Vvi3g335 . Blo15g00756 Bda06g01081 . . . . . . . Cma02g00375 Cma20g00824 Car02g00242 Car20g00710 . . . . . . . . . . . . . . . . . . . . . Lsi10g00400 . Chy11g00351 . . . . . . . . . . Cmo02g00382 Cmo20g00835 . . . . Cpe16g00264 Cpe05g01280 Bhi10g01968 . . . Hepe08g0991 . . . . . . . . . . Csa02g01291 . Cme11g00153
       

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
OG0004368 1 2 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 2 4 1 3 42
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26016 PF00176 SNF2_N 1.60E-19 CL0023 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g00400 Lsi_Chr10 FPKM 21.717909 20.486679 16.434303 15.481583 14.842568 12.074425 15.23466 13.736601 15.510509 15.20658