Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01547 TCTTTCACTTCCCGCTTCCGTCTCGTTTCCGTCTTTCTCGGCTTTGCTTTGCTCTACTGCTCACATTTCTCCTTCCTCTTCTTCTCCCAACGAAATTTCGCTCCTGTTTTTCTCTCCATGATCTTACGAGAACCAGCTCTTGTTCTTGTGGTTGTTTCCGATTCATTGCCATCAAATTCGATCAGGCTTCTGCACCGTCGTATGGCGGTTCGTGATTCTCCATCTAGCTTGTATGACGGGTTTTTCTTGTCGATGCTCGCGACTAGTGTGTATCCTTCAGTATTTTGGAGAATTTTGGAATTAGTAATAGTTTCAATCAATTGGAAGAGGTATCATACTTGTGTACATCCCTTGCATATATGGATTGTGGTTGATTATACTACCGTCTTTGTTTTTCGCCTGCTGATGTTTGTAGATAATGGACTTGCTGCTGGAATGGGGACTTTGGGTGGCAGCAGAGGTATGCTCGATTTTGTGGAAGAATTGTGGTCCTTTCAGTCCTTGCACTTCTGCTATATCCTTTTCTGTGGGCTTGGACTGCCATTGGTACTTTATGGTTTAGAGAAGCCCATAAATCTTCCTGAGCAAGGCCAGAAATGGGGATTCCTAATTTGGTTGCTTTTTAGCTACTGCGCACTCGTATGCATTGCTTGCATGTCATTGGGAAAGTGGTTAACTCGTAGACAAGCACTCTTGTTTCGGGCGCAACAAGGGATCCCTGTATCAGAATATGGGGTCTTGGTTGACATGATCCGTGTACCAGATTGGGCTTTTGAAGCCGCTGGACAAGAAACAAGGAGGGAAGCTGTGGAAGCACTTATTGAGGAACTTCCCAAATTCAGGTTAAAGGCTGTTCCAACAGATTGCAGTGAATGTCCTATCTGCTTAGAAGAGTTTCATGTAGGGAATGAGGTAATTGATTTTTCTTGTCTTGCCATTTCATTTATTAAAGAAGTTCGGAAAACTGTGGGTGTAATAAACTTGTATTTTACTGCATTTCACGCTCAAGCTACAGAAGTTCGTGGCCTTCCTTGTGCTCATAATTTCCATGTAGGATGCATTGATGAGTGGCTTCGACTAAACGTGAAATGCCCTAGATGTCGTTGCTCGGTCTTCCCAAACCTTGATCTCAGTGCTCTATCCAATCTTCGTTCCGATACTGATAGGCCATCTGCAAGTGTTGTTACGGCCAATCGTTATATTAGATCTCAACCTTCCAGCCAAAGTTATCTGGTGAGATTGCAGGGTCTGCTTCGACCTGTTCGCACAGAAAACGCTGATGCACACAGTGATTTAGAGTCTGCTAGTGCTTTGGAAGCTGCTGAGAATGGGTCTGCCCATGACCAAACTATACCAGAACGGTCTCCCGCAAGACCCATGTCTTTGAGTCAGTCCACGTCACAACTCTAG 1410 44.54 SFTSRFRLVSVFLGFALLYCSHFSFLFFSQRNFAPVFLSMILREPALVLVVVSDSLPSNSIRLLHRRMAVRDSPSSLYDGFFLSMLATSVYPSVFWRILELVIVSINWKRYHTCVHPLHIWIVVDYTTVFVFRLLMFVDNGLAAGMGTLGGSRGMLDFVEELWSFQSLHFCYILFCGLGLPLVLYGLEKPINLPEQGQKWGFLIWLLFSYCALVCIACMSLGKWLTRRQALLFRAQQGIPVSEYGVLVDMIRVPDWAFEAAGQETRREAVEALIEELPKFRLKAVPTDCSECPICLEEFHVGNEVIDFSCLAISFIKEVRKTVGVINLYFTAFHAQATEVRGLPCAHNFHVGCIDEWLRLNVKCPRCRCSVFPNLDLSALSNLRSDTDRPSASVVTANRYIRSQPSSQSYLVRLQGLLRPVRTENADAHSDLESASALEAAENGSAHDQTIPERSPARPMSLSQSTSQL 469
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 25828898 25833037 + Lsi06G015470.1 Lsi06g01547 666277

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01547 469 SUPERFAMILY RING/U-box 274 376 - -
Lsi06g01547 469 Pfam Ring finger domain 338 368 IPR001841 -
Lsi06g01547 469 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 256 373 IPR013083 -
Lsi06g01547 469 PANTHER E3 UBIQUITIN-PROTEIN LIGASE SIS3 68 449 - -
Lsi06g01547 469 ProSiteProfiles Zinc finger RING-type profile. 292 368 IPR001841 -
Lsi06g01547 469 PANTHER E3 UBIQUITIN-PROTEIN LIGASE SIS3 68 449 IPR044793 GO:0004842|GO:0010182
Lsi06g01547 469 MobiDBLite consensus disorder prediction 434 469 - -
Lsi06g01547 469 SMART ring_2 292 367 IPR001841 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01547 K16284 SIS3; E3 ubiquitin-protein ligase SIS3 [EC:2.3.2.27] - csv:101208939 536.954
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi06g01547 Lsi-Chr6:25828898 Lsi03g01645 Lsi-Chr3:27631109 2.15E-08 dispersed
Lsi02g00365 Lsi-Chr2:3123066 Lsi06g01547 Lsi-Chr6:25828898 9.07E-114 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
Vvi17g735 . . . . Bpe12g00593 . . . . Cmo18g00124 Cma10g00129 Cma11g00101 Car10g00121 Car11g00100 Sed08g0132 Cpe20g00235 . Bhi02g00435 Tan09g2237 Cmetu02g1086 . Hepe09g0195 . . Cla06g01657 Cam06g1842 Cec06g1893 Cco06g1898 Clacu06g1802 . Cre06g2561 . . . Cone19ag0136 . Csa01g00843 Chy12g01273 . . . . . . . . Bma08g00169 . Cmo10g00136 Cmo11g00101 . . Car13g00734 Car18g00155 Cpe09g01032 Cpe18g00841 Bhi08g01598 . . Lac10g0440 . . . Cla01g01293 Cam01g1437 Cec01g1471 Cco01g1455 Clacu01g1360 Cmu01g1265 Cre01g1271 Lsi06g01547 Csa01g00157 Chy02g02573 Cme02g01963
       

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
OG0002467 0 5 1 1 1 2 4 2 2 2 1 2 2 1 2 3 1 1 3 2 2 2 2 2 2 1 1 7 3 1 61
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01547 Lsi_Chr06 FPKM 6.037429 5.801939 9.615993 10.532501 14.241714 12.355367 14.010575 8.295658 9.174674 8.368312