Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma09g00013 ATGGCTGAACACTTGGCCTCAATATTTGGCTCGGAGAAGGACCGTGTCAACTGCCCTTTCTATTTCAAGATCGGCGCCTGCCGTCATGGAGATCGCTGCTCTCGCCTCCACAACCGCCCTACTATTTCCCCGACACTTCTCTTGTCGAACATGTACCAACGCCCCGACATGATCACCCCCGGCGTCGATGCTCAGGGCCAGCCTATAGATCCCCGAAAGATTCAGGAGCACTTTGAGGATTTCTATGAAGACATTTACGAGGAACTTGGTAAGTTCGGTGAGATCGAGTGCCTTAATGTCTGTGATAATCTCGCCGACCACATGATTGACAATGTCTACGTTCAGTTTTGGGAGGATGACCAGGCAGCTGCCGCATTACAAGCGTTGCAATGGCGGTTCTACTCTGGTCGACCCATTATCGCAGATTTTTCTCCGGTGACTGATTTCCGCGAAGCCACGTGCCGCCAATACGAGGAGAATAATTGCAATCGAGGGGGATATTGCAATTTTATGCATGTCAAGATGATCGGGAAGGATTTGAGGAGGAAGCTGTTCGGTAGGCACCGGGGATATAGGCGGAGCCGGAGCAGGAGTAGAAGTTTGAGTCCGCGGAACCGGAGGAGTTGGATAGGCGCGAGAGGGATTACAGAGATCGTGAGTCTCGCGGAAACGGACGGAGCAAGGAGCGTCATGATAGGTATGATAGGGATGGGGGAAGGAGAAGGCATGGTAGCCCCAGACGAAGCAGAAGCCCTGTGA 759 52.7 MAEHLASIFGSEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDMITPGVDAQGQPIDPRKIQEHFEDFYEDIYEELGKFGEIECLNVCDNLADHMIDNVYVQFWEDDQAAAALQALQWRFYSGRPIIADFSPVTDFREATCRQYEENNCNRGGYCNFMHVKMIGKDLRRKLFGRHRGYRRSRSRSRSLSPRNRRSWIGARGITEIVSLAETDGARSVMIGMIGMGEGEGMVAPDEAEAL 252
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
9 87546 88304 + CmaCh09G000130.1 Cma09g00013 300018

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma09g00013 252 PANTHER U2 SNRNP AUXILIARY FACTOR, SMALL SUBUNIT 1 210 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PANTHER SPLICING FACTOR U2AF SMALL SUBUNIT A 1 210 - -
Cma09g00013 252 SMART c3hfinal6 148 174 IPR000571 GO:0046872
Cma09g00013 252 SMART c3hfinal6 13 39 IPR000571 GO:0046872
Cma09g00013 252 ProSiteProfiles Zinc finger C3H1-type profile. 148 175 IPR000571 GO:0046872
Cma09g00013 252 CDD RRM_U2AF35B 44 145 - -
Cma09g00013 252 Pfam Zinc finger C-x8-C-x5-C-x3-H type (and similar) 150 173 IPR000571 GO:0046872
Cma09g00013 252 Pfam Zinc finger C-x8-C-x5-C-x3-H type (and similar) 14 38 IPR000571 GO:0046872
Cma09g00013 252 SUPERFAMILY RNA-binding domain, RBD 32 154 IPR035979 GO:0003676
Cma09g00013 252 Gene3D - 43 145 IPR012677 -
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 165 177 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 75 90 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 37 57 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 130 154 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 103 125 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 PRINTS U2 auxiliary factor small subunit signature 18 37 IPR009145 GO:0000398|GO:0003723|GO:0089701
Cma09g00013 252 ProSiteProfiles Zinc finger C3H1-type profile. 12 40 IPR000571 GO:0046872
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma09g00013 K12836 U2AF1; splicing factor U2AF 35 kDa subunit - csv:101208972 382.489
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma01g02046 Cma09g00013 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma07g00870 Cma-Chr7:4066836 Cma09g00013 Cma-Chr9:87546 7.35E-111 dispersed
Cma09g00013 Cma-Chr9:87546 Cma13g00279 Cma-Chr13:2350429 3.52E-117 dispersed
Cma01g02046 Cma-Chr1:13006431 Cma09g00013 Cma-Chr9:87546 3.07E-127 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
Vvi18g31 . . . Bda03g00337 . Bpe04g00296 Bma04g00306 . . . Cma01g02046 Cma09g00013 Car01g01612 . . . . . . . . . . . . . . . . . . . . . . Lsi04g02431 Csa04g02745 . . Blo17g00911 . . . . . . . . Cmo01g02103 . . . . Car09g00013 . Cpe02g00010 . . . . . . . Cla11g01859 Cam11g1926 Cec11g1953 Cco11g1965 Clacu11g2091 Cmu11g1894 Cre11g2302 . . Chy07g00433 Cme07g00017
       

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
OG0000890 2 7 1 3 3 1 5 1 1 2 3 2 5 3 3 2 1 3 4 1 3 1 2 3 4 3 2 6 5 1 83
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
35572 PF00642 zf-CCCH 0.00013 CL0537 Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma09g00013 Cma_Chr09 FPKM 4.328063 4.81202 5.784044 7.147727 5.283877 6.662066 6.943301 4.590325 5.992868 5.411414