Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00538 ATGATTCCAAAATCAAAAGATTTTCATCGCCGGATTATGTCGTATCCGGCGATTCAATCATGCGAATGCACAGCTCCGGCGACTCTATTGACATCTTTGATCAATCTCAGTCGTACTATCTGTAGTTACAGATACAAATTCTTCGGCAGCAACAAGCGAAACGCCATCAAATCAATTCGCCAAATCGGAATTCTTATGACATTGTTCGAAGAACTTCAAGATCGGAAATCAGAAGAATTTTCAGAATCAACCGTATTAGTCATGTCGGAGCTCCATTTAATCTTTCAAAAGATTTTGTATCTGTTGGAAGATTGTGCTCTAGAAGGCGCTCGTTTGTTGATGCTAATGAAATCGGAACTCATCGCGAATCGGTTTTGGGTTTTGATTCGATCCATTGCTCTGGCTCTGGAGATTTTGCCATTGGATTCAATGGATATTTCACTCGACGCCGTGGAGTATGTGGAACTGGTGACGAAACAAGCACGAAGGGCGAAATTCGGAATCGATCGTGAAGATGAAGAGATTCTCAACGAGGTAAAATCAATACTGTCTCTATTTGATTCTGGTGCTGTTCCGGAAAATAGTCAAATCAAACGCGTTCTTGATTATATTGGGGTTAAATCGTGGAGTTTGTGCAGTAAGGAGGTGAAATTTTTGGATTCAGAAATTGAATTTGAATGGTCTAATCAGGATAAAACAGAGCTTTCCTTCTTAAGCAACTTAATGGGTTTGATGAACTACTGTCGATGTATGTTATTCGATGTTGTCGATAGCGAAGTAGTTCGACATGTCGATCAATGTAGCAACGGAATCATCGATTGTTTAAACCCAGATGATTTTCGATGCCCAATCTCTTTGGATTTCATGTTTGATCCTGTGACACTCACAACAGGGCAGACTTATGATCGTTCTTCGATTCAAAAGTGGTTTCGGGCTGCAAATCTCACCTGCCCTAATACAGGGGAGAGATTGAAGTACAAAGAATTAGTCCCCAATTTAGCTCTCCATCGGATAATTCGACAATACTGTTTTAAAAATTCAATCCCTTTTCCAGAATCAAGCAAACAAAAACCCAACTTAACGAGGACGATTGCTTCTGGTAGTCCCACAGTGGAGAAGATTATTGGGTTTCTGGTGAATTTTTTAGCTAAGTTTCTTGAATCAGGAACGCTGGAAGAGAAGAACAGAGCTGCTTTCGAGATCAAATTTCTATCCAAAGCAAGTCTTTTTTATCGTTATTGTTTGGTGGAAGTTGGTCTAATTCCAAATTTACTCAAGCTTTTGAGATCTACAGATACTTTAACGCAGAAGAACGCCATTGCAGCTGTGTTGAACCTCTCAAAGCATTCAAAAAGCAAGAAAGTAATAGCGGAAAACAGAGGATTAGAAGCAATTGTAGATGTTTTAATGACGGGTTACAGAGTAGAAGCCCGTCAATTTGCTGCTGGTGCTCTGTTTTACATGGCTTCCATTGAAGAATACAGAAATCTCATTGTGGAAATCCCGAATGCACTTTCGGGTTTGTTGAATTTACTCAAAGAAAAATCAGATCGTAGTAAAAAGAATGCAATGGTTGCAATATATGGGCTTCTTATGCATTCTGGAAACCACAGGAAAGTGCTTTCCGCTGGAGCAGTTCCATTATTGGTTGATTTGATTAAAACATCCGATAGTGAAATTCTGATATCAGATTCAATGGAGATTCTTGCAACTCTAGCAGGAAAGCCAGAAGGAACGGCTGCGATTTTGCGAAGTGGGGCTTTGAATTCAATCGTGGGGTTTCTGAATTCATGTAGCTCAATTGGTGGACGAGAGTACTCTGTTTCTTTACTGGTAGCTCTGTGCGTTAATGGCGGATCTGAAGTAATTGGTGTCCTTGCAAAGAATCAAACTGTAATTTCGTCGGTGTATAGCCTTGTAAGTGAAGGCACAAGTCGAGGGAAGAGGAAAGCAAGTTCTTTGATTAGAGTTCTTCAGGAATTCACTGAATTAGAGTCATCAAGCTCTGAAACAAATCATCTTAGGCAAGATCGAATTGTTCAAGCCTGGTAA 2052 40.06 MIPKSKDFHRRIMSYPAIQSCECTAPATLLTSLINLSRTICSYRYKFFGSNKRNAIKSIRQIGILMTLFEELQDRKSEEFSESTVLVMSELHLIFQKILYLLEDCALEGARLLMLMKSELIANRFWVLIRSIALALEILPLDSMDISLDAVEYVELVTKQARRAKFGIDREDEEILNEVKSILSLFDSGAVPENSQIKRVLDYIGVKSWSLCSKEVKFLDSEIEFEWSNQDKTELSFLSNLMGLMNYCRCMLFDVVDSEVVRHVDQCSNGIIDCLNPDDFRCPISLDFMFDPVTLTTGQTYDRSSIQKWFRAANLTCPNTGERLKYKELVPNLALHRIIRQYCFKNSIPFPESSKQKPNLTRTIASGSPTVEKIIGFLVNFLAKFLESGTLEEKNRAAFEIKFLSKASLFYRYCLVEVGLIPNLLKLLRSTDTLTQKNAIAAVLNLSKHSKSKKVIAENRGLEAIVDVLMTGYRVEARQFAAGALFYMASIEEYRNLIVEIPNALSGLLNLLKEKSDRSKKNAMVAIYGLLMHSGNHRKVLSAGAVPLLVDLIKTSDSEILISDSMEILATLAGKPEGTAAILRSGALNSIVGFLNSCSSIGGREYSVSLLVALCVNGGSEVIGVLAKNQTVISSVYSLVSEGTSRGKRKASSLIRVLQEFTELESSSSETNHLRQDRIVQAW 683
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4973740 4975791 + Lsi04G005380.1 Lsi04g00538 660587

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00538 683 SMART Ubox_2 279 342 IPR003613 GO:0004842|GO:0016567
Lsi04g00538 683 ProSiteProfiles Armadillo/plakoglobin ARM repeat profile. 544 587 IPR000225 GO:0005515
Lsi04g00538 683 Pfam U-box domain 277 347 IPR003613 GO:0004842|GO:0016567
Lsi04g00538 683 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 276 348 IPR013083 -
Lsi04g00538 683 SMART arm_5 533 574 IPR000225 GO:0005515
Lsi04g00538 683 SMART arm_5 575 616 IPR000225 GO:0005515
Lsi04g00538 683 SMART arm_5 449 490 IPR000225 GO:0005515
Lsi04g00538 683 SMART arm_5 407 448 IPR000225 GO:0005515
Lsi04g00538 683 PANTHER U BOX DOMAIN-CONTAINING 5 674 - -
Lsi04g00538 683 SUPERFAMILY ARM repeat 372 658 IPR016024 -
Lsi04g00538 683 Pfam Armadillo/beta-catenin-like repeat 414 447 IPR000225 GO:0005515
Lsi04g00538 683 Gene3D - 372 670 IPR011989 -
Lsi04g00538 683 PANTHER U-BOX DOMAIN-CONTAINING PROTEIN 18 5 674 - -
Lsi04g00538 683 CDD RING-Ubox_PUB 280 322 IPR045210 -
Lsi04g00538 683 SUPERFAMILY RING/U-box 277 351 - -
Lsi04g00538 683 ProSiteProfiles Armadillo/plakoglobin ARM repeat profile. 419 461 IPR000225 GO:0005515
Lsi04g00538 683 ProSiteProfiles U-box domain profile. 275 349 IPR003613 GO:0004842|GO:0016567
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00538 - - - csv:101213886 1112.83
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00538 Lsi-Chr4:4973740 Lsi02g01363 Lsi-Chr2:18368167 1.29E-72 dispersed
Lsi02g00361 Lsi-Chr2:3074254 Lsi04g00538 Lsi-Chr4:4973740 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
Vvi1g734 . . . . . . . Bma15g00190 . . . . . . Sed06g1631 . Cpe01g01524 Bhi07g01714 Tan04g1218 Cmetu10g0188 Lac13g0211 Hepe10g1648 . . Cla05g02532 Cam05g2722 Cec05g2753 Cco05g2794 Clacu05g2724 Cmu05g2578 Cre05g2692 Cone2ag0897 . . . Lsi04g00538 Csa05g02344 Chy10g00911 Cme10g00515 Blo06g00872 . . . . . . . . . . Cma04g01724 . Car04g01755 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0002583 2 2 2 2 1 2 2 2 2 2 2 2 2 2 2 1 2 3 2 2 2 2 2 2 2 2 2 3 2 1 59
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00538 Lsi_Chr04 FPKM 21.842283 25.929136 19.349707 18.70809 21.953724 24.05468 24.357435 22.032013 21.932661 20.625328