Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g01892 ATGTCAGCTGGTCGGAACACCCATTGGTGTTATAGATGCAGAAGGTCAGTACGTCTCCGTGGTAGAGATGCAGTTTGCCCCAACTGCAATGGAGGATTTATCCAAGAACTTGATGATATGGTGCCTGGAAATCCATTTGATTTCTTTGGTCTAGATCATGATGAAGATCGCGATCATGGTCTGGGTGCATTCTCTGCTTTTATGAGACAACGTTTAGCCGAAAGAAATGACATGAGGGGAAGATCAGAGTCACTTTTTGAGCATAGCCCGGGATTTGGTCCTCTATTAATATTTGGTGGTCAAATACCGTTGAGAAACAGCAGGTTAGAAGCTCTCTTCAATGGGGCTCCTGGCATTGGTATTACACGGGGCGATAGTGGTGACTACTTCATAGGCCCTGGACTGGAGGAGCTATTTGAACAGCTTTCAGAAAATGGTCATCGTGGCCCTCCACCAGCATCTAGATCATCAATCGATGCAATGCCAACAGTTAAGATCACGCAACGACATCTTCGCTCAGATTCACATTGTCCAGTTTGTAAAGAGAAATTTGAACTGGGGTCTGAAGCAAGGCAGATGGCTTGTAATCACATGTACCACTCAGATTGTATTGTTCCATGGCTAATCCAGCACAATTCTTGCCCTGTCTGCCGCCAGGAACTGCCACCACAAGGAATAGGAGGTGGGGGTGGGGGACATAGCACCAACGATCAAAACCGAAGCAACAGCTACAACAACGGGAGTGGCTCCCGGGTCAATCCAGGTAGACGCAATCCATTCTCTTATCTGTGGCCGTTTCGGTCATCTAGTTCTAACTCCAACCATGGCGGAGCAGGGAGCAGTGAACCGTCGAACCACCAAATGGGGTATTCAGGATATCGATACACTAGTTCACCATGA 900 47.56 MSAGRNTHWCYRCRRSVRLRGRDAVCPNCNGGFIQELDDMVPGNPFDFFGLDHDEDRDHGLGAFSAFMRQRLAERNDMRGRSESLFEHSPGFGPLLIFGGQIPLRNSRLEALFNGAPGIGITRGDSGDYFIGPGLEELFEQLSENGHRGPPPASRSSIDAMPTVKITQRHLRSDSHCPVCKEKFELGSEARQMACNHMYHSDCIVPWLIQHNSCPVCRQELPPQGIGGGGGGHSTNDQNRSNSYNNGSGSRVNPGRRNPFSYLWPFRSSSSNSNHGGAGSSEPSNHQMGYSGYRYTSSP* 300
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 18679570 18682864 - CsaV3_4G029180.1 Csa04g01892 527502

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g01892 299 MobiDBLite consensus disorder prediction 225 299 - -
Csa04g01892 299 Pfam zinc-ribbon 6 37 IPR039525 GO:0061630
Csa04g01892 299 CDD RING-H2_RNF126_like 177 218 - -
Csa04g01892 299 PANTHER E3 UBIQUITIN-PROTEIN LIGASE RHC1A-RELATED 2 284 - -
Csa04g01892 299 SUPERFAMILY RING/U-box 157 224 - -
Csa04g01892 299 ProSiteProfiles Zinc finger RING-type profile. 177 218 IPR001841 -
Csa04g01892 299 MobiDBLite consensus disorder prediction 231 255 - -
Csa04g01892 299 SMART ring_2 177 217 IPR001841 -
Csa04g01892 299 PANTHER E3 UBIQUITIN-PROTEIN LIGASE PRAJA 2 284 - -
Csa04g01892 299 MobiDBLite consensus disorder prediction 263 299 - -
Csa04g01892 299 Pfam Ring finger domain 176 218 IPR001841 -
Csa04g01892 299 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 139 224 IPR013083 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g01892 K11982 RNF115_126; E3 ubiquitin-protein ligase RNF115/126 [EC:2.3.2.27] - csv:101214886 617.076
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g03072 Csa-Chr1:26756471 Csa04g01892 Csa-Chr4:18679570 1.36E-52 dispersed
Csa03g03742 Csa-Chr3:33210181 Csa04g01892 Csa-Chr4:18679570 2.93E-128 dispersed
Csa04g01812 Csa-Chr4:17771517 Csa04g01892 Csa-Chr4:18679570 1.51E-46 dispersed
Csa04g01892 Csa-Chr4:18679570 Csa05g00723 Csa-Chr5:4953167 1.91E-41 dispersed
Csa04g01892 Csa-Chr4:18679570 Csa06g01470 Csa-Chr6:12480978 2.44E-44 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
Vvi18g291 . Blo12g00673 . Bda03g00531 . Bpe04g00485 . . . . . Cma09g00804 . . . Cpe06g00639 . . . . . . . . . . . . . . . Cone4ag1390 . . . Lsi04g02380 Csa04g01892 . . . . . . . . . . . . Cmo09g00797 . . . Car09g00720 . . Bhi09g02658 . . . Hepe01g2273 Mch11g0820 . Cla11g01527 . . . . . . . . Chy07g00659 Cme07g00866
       

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
OG0002163 1 8 2 2 2 1 3 1 2 2 2 1 2 2 2 3 1 1 3 1 2 2 2 2 2 2 1 6 2 1 64
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g01892 Csa_Chr04 FPKM 4.768038 4.988211 1.148055 1.167547 2.163638 1.484852 1.657436 0.0 0.0 0.0