Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01275 ATGACCGACGCCATGGACTTGCTTCGATCTAATCTCTCCCGCGTTCGCATTCCGGAGCCTACCAATCGCATCTACAAGCAGGAATGCTGCTTGTCCTTCGACACTCCGAGGTCAGAAGGTGGTTTGTACATTGATTTGAATACATTTCTAGCATTTGGAAAAGATTTTGTAGGTTGGAACTATGAGAGGACTGGAAATCCTGTGTATTTACACATAAAGCAAAGAAAGAAGTTGGTTCCTGAAGACAGGCCTTCAAAGAAACCTACTCTCTTAGCTATAGGAGTTGATGGTGGGTTTGATAACAATGAACCCGAATATGATGAAACTTGTAATATAGTGATACTGCCTAATTATGCAACTCTTCCATTTCCTTCTGTGGAGCTGCCAGAGAAGGTAAGGTTGGCAGTTGATGCTGTCTTATTGGCTGAGGGCGCTGAGAGAAAAGAGCAACTTGCAGCATGGACAGCTGATAAGAAGCAGATTAGTTCATATGCAATGAATCTGCAGCAGATTGACAATGGTGTTATAGTTCCTCCTTCTGGATGGAAGTGTTCTAAATGTGATAAAACTGAGAATCTGTGGCTCAATTTAACCGATGGAGTGATCCTTTGTGGGAGAAGAAATTGGGATGGAACAGGAGGTAACAACCATGCTGTTGAGCACTACAAAGAGACAGGCTATCCTCTTGCTGTTAAACTAGGAACGATCACAGCTGACCTCGAAGCAGCAGGTAATGTTTTGCTTGATAAAGTTGACAATGTCACTTTCTCAGATGTTTACTCTTATCCAGAGGATGACAGTGTCTTGGACCCAATTCTAGGACAACATCTTGCTTTCTTTGGCATTGACTTTTCATCATTACAGAAGACTGAAATGACCACTGCTGAAAGAGAGCTTGACCAAAACACTAATTTTGATTGGAATCGGATACAAGAAAGTGGACAGGAAGTTGAACCAGTTTTTGGGCCAGGTTACACTGGGCTTGTTAATTTAGGAAACAGCTGCTACTTGGCAGCGACTATGCAAGTTGTATTTTCAACGCATCTATTCTGTGAAAGATACTACACGAAACAAAGTTTAAAATCGGCTTTTGAAACTGCACCTGCAGATCCAACTGTTGATCTTAACATGCAGCTAACTAAACTGGCACATGGTTTGCTATCCGGAAAATATTCAATTCCTTCACCAGAGAAACAGGAAGGCATACCCCCTCGAATGTTCAAAGCAGTTATTGCCGCGAGCCATCCTGAATTTTCTACGATGAGACAGCAGGATGCCTTGGAATTCTTCCTGCATTTTCTTGACCAAGTTGAGAGACAGAATTCTGGGAGTTCTGGAAGTGATCCTTCAAGAAGCTTCAAATTTGGTATTGAGGATCGTATTGTGTGTTCCTCTGGAAAAGTTGCTTATAACAGACGGCATGATTATATTCTCTCATTGAACATCCCATTACATGAAGCTACTAATAAAGATGAAGTTGAAGCCTTCCAGAAGCTCAAGGCACAAAAGATCTCAGAAGGGAAGGAACTAGGCACTGATGAAATTGTCCGGCCTAGAGTACCTCTAGAGGCATGCGTTGCAAGCTTTTCATCTCCCGAGGAGATTCATGATTTTTACAGCACTTCCTTGCAAACTAAGACTACAGCAACGAAGACAGCAAGATTAACTTCCTTCCCAGACTACCTGGTCTTGCATATGCGCAAATTTATTATGGGGGAGGGCTGGGTGCCCAAAAAACTAGATGTCTATATTGATGTCCCTGACATCATTGATCTTAGTCAATTGCGTAGTAAAGGACCTCAGGCTGGGGAAGAGCTTTTGCCCGAGGCTGGTCCTGAGGATGAGTTTCAGTCAAATAAACCTTCAGCCAACGACGATATTGTTGCTCAACTCGTGTCAATGGGATTTAACCATCTTCACTGTCAGAAAGCTGCCATTAATACCTCAAACGCTGGCGTTGAAGAGGCTATGAATTGGTTACTTTCTCACATGGATGATCCAGATATAAATGATCCGATCTCCGACAAGGCAGATTTTGTTGTTGACCAAACAAAAGTTGACATGTTGCTTCAATTTGGTTTTCAAGAAGCCATTGCTAAGAAAGCACTAAAGGCATCTGGTGGTGACATTGAGAAAGCCACAGATTGGATATTTAACAATCCTGAAGCTTCTATATCATCAGAACCAGACTGTTTGGATGCCACTACATCAAGCACACCAACTAACCTCGATGCTGGGCTCCCCGATGGTGGAGAGAGTTAG 2262 42.71 MTDAMDLLRSNLSRVRIPEPTNRIYKQECCLSFDTPRSEGGLYIDLNTFLAFGKDFVGWNYERTGNPVYLHIKQRKKLVPEDRPSKKPTLLAIGVDGGFDNNEPEYDETCNIVILPNYATLPFPSVELPEKVRLAVDAVLLAEGAERKEQLAAWTADKKQISSYAMNLQQIDNGVIVPPSGWKCSKCDKTENLWLNLTDGVILCGRRNWDGTGGNNHAVEHYKETGYPLAVKLGTITADLEAAGNVLLDKVDNVTFSDVYSYPEDDSVLDPILGQHLAFFGIDFSSLQKTEMTTAERELDQNTNFDWNRIQESGQEVEPVFGPGYTGLVNLGNSCYLAATMQVVFSTHLFCERYYTKQSLKSAFETAPADPTVDLNMQLTKLAHGLLSGKYSIPSPEKQEGIPPRMFKAVIAASHPEFSTMRQQDALEFFLHFLDQVERQNSGSSGSDPSRSFKFGIEDRIVCSSGKVAYNRRHDYILSLNIPLHEATNKDEVEAFQKLKAQKISEGKELGTDEIVRPRVPLEACVASFSSPEEIHDFYSTSLQTKTTATKTARLTSFPDYLVLHMRKFIMGEGWVPKKLDVYIDVPDIIDLSQLRSKGPQAGEELLPEAGPEDEFQSNKPSANDDIVAQLVSMGFNHLHCQKAAINTSNAGVEEAMNWLLSHMDDPDINDPISDKADFVVDQTKVDMLLQFGFQEAIAKKALKASGGDIEKATDWIFNNPEASISSEPDCLDATTSSTPTNLDAGLPDGGES 753
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 20111837 20125653 + Lsi04G012750.1 Lsi04g01275 661324

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01275 753 PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 14 751 - -
Lsi04g01275 753 SUPERFAMILY Cysteine proteinases 321 675 IPR038765 -
Lsi04g01275 753 MobiDBLite consensus disorder prediction 724 753 - -
Lsi04g01275 753 Gene3D - 676 735 - -
Lsi04g01275 753 SUPERFAMILY UBA-like 672 723 IPR009060 GO:0005515
Lsi04g01275 753 SMART Zf_UBP_1 183 238 IPR001607 GO:0008270
Lsi04g01275 753 Pfam Variant UBP zinc finger 15 77 IPR041432 -
Lsi04g01275 753 SUPERFAMILY RING/U-box 162 284 - -
Lsi04g01275 753 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 148 271 IPR013083 -
Lsi04g01275 753 ProSiteProfiles Ubiquitin specific protease (USP) domain profile. 326 685 IPR028889 -
Lsi04g01275 753 Pfam UBA/TS-N domain 625 660 IPR015940 -
Lsi04g01275 753 Pfam UBA/TS-N domain 682 717 IPR015940 -
Lsi04g01275 753 Pfam Ubiquitin carboxyl-terminal hydrolase 326 601 IPR001394 GO:0004843|GO:0016579
Lsi04g01275 753 ProSiteProfiles Ubiquitin-associated domain (UBA) profile. 680 720 IPR015940 -
Lsi04g01275 753 ProSiteProfiles Ubiquitin-associated domain (UBA) profile. 622 663 IPR015940 -
Lsi04g01275 753 PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 14 751 - -
Lsi04g01275 753 CDD Peptidase_C19B 327 591 - -
Lsi04g01275 753 PIRSF UBP 5 748 IPR016652 GO:0004843|GO:0016579
Lsi04g01275 753 Pfam Zn-finger in ubiquitin-hydrolases and other protein 184 271 IPR001607 GO:0008270
Lsi04g01275 753 ProSitePatterns Ubiquitin specific protease (USP) domain signature 1. 327 342 IPR018200 GO:0004843|GO:0006511
Lsi04g01275 753 MobiDBLite consensus disorder prediction 600 619 - -
Lsi04g01275 753 Gene3D - 625 667 - -
Lsi04g01275 753 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 2 107 IPR013083 -
Lsi04g01275 753 ProSiteProfiles Zinc finger UBP-type profile. 160 284 IPR001607 GO:0008270
Lsi04g01275 753 CDD UBA1_atUBP14 624 668 - -
Lsi04g01275 753 MobiDBLite consensus disorder prediction 724 744 - -
Lsi04g01275 753 SMART uba_6 682 719 IPR015940 -
Lsi04g01275 753 SMART uba_6 624 662 IPR015940 -
Lsi04g01275 753 Gene3D Cysteine proteinases 319 624 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01275 K11836 USP5_13, UBP14; ubiquitin carboxyl-terminal hydrolase 5/13 [EC:3.4.19.12] - csv:101210128 1409.43
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01275 Lsi-Chr4:20111837 Lsi04g01349 Lsi-Chr4:21247051 1.53E-07 dispersed
Lsi04g01275 Lsi-Chr4:20111837 Lsi03g01802 Lsi-Chr3:29426251 4.26E-06 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
Vvi19g318 . . Bda07g00267 . . . . . . . . . . . . Cpe06g00723 . . . . . . . . . . . . . . . . . . . Lsi04g01275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0008963 1 1 1 0 1 0 2 1 0 1 1 1 2 1 1 2 0 2 2 1 1 1 1 1 1 1 1 1 1 1 31
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01275 Lsi_Chr04 FPKM 22.643822 25.654238 15.382075 17.051287 20.723625 15.261172 19.536116 22.356346 23.031704 24.185364