Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma09g01285 ATGACTGAACCCTCAAAGGTTATTCACGTCCGGAATGTTGGCCATGAAATATCGGAGAACGATTTGCTTCAGCTATTCCAGCCATTTGGTGTCATAACCAAGCTTGTGATGCTTCGTGCTAAAAATCAGGCTCTTATCCAGATGCAAGATGTTCCCTCAGCAGTTAATGCTTTGCAGTTCTTTGCAAATGTTCAACCTAGCATTAGGGGGAGGAATGTTTATGTCCAGTTTTCATCACATCAAGAGCTAACTACTGCTGATCAGAATGCTCAAGGACGAGGAGATGAGCCAAATCGAATACTCTTAGTCACAATCCATCACATGCTATATCCCATTACAGTGGAAGTGCTGCATCAAGTGTTTTTCCCACATGGATTTGTGGAGAAGATCGTGACATTTCAGAAGTCAGCTGGTTTTCAGGCTCTCATTCAGTATCAAACTCGCCAATGTGCTATTTCTGCTAGGACTGCACTACAGGGACGCAATATATATGATGGTTGCTGTCAGCTTGACATTCAGTTCTCCAATCTTGACGAGTTACAGGTGAACTACAACAATGAACGTTCGAGGGATTTCACAAATCCTAGCCTGCCATCTGAACCAAAAGGCCGGCCATCTCAACAGCCTGGATATGGTGATGCGGGAGGCATGTATGCACTTCAAGCATCTGGAGCAGGACCAGTTGGCTTTCCACAGATGGCCAATGCGGCTGCTGTTGCTGCTGCATTTGGAGGAGGTTTGCCACCTGGTGTTAGCGGGACTAACGATAGGTGTACAGTCCTCGTGTCCAATCTGAATCCTGATAGAATAGATGAAGACAAGCTTTTTAACCTTTTCTCCATATACGGTAACATTGCAAGAATTAAGCTTCTCCGGAATAAACCTGATCATGCACTTGTTCAGATGGGAGATGGGTTCCAGGCAGAATTAGCTGTGCACTTCTTGAAGGGAGCAATGTTGTTTGGCAAGAGATTGGAGGTCAACTTCTCAAAGCATCCTAACATTACACAAGGGGCTGACACTCATGAATATGCTAACTCAAATCTTAATCGTTTTAACCGAAATGCTGCAAAGAACTACCGCTACTGCTGCTCCCCAACAAAGATGATTCACATTTCATCGTTATCCCAGGAAGTGACTGAAGAAGAAATAGTGAATCTCCTCGAGGAGCACGGGCCGATCATCAACACCAAGCTCTTTGAGATGAATGGGAAGAAACAGGCACTCATCATGTTTGACACTGAGGAGCAGGCCACTGAAGCTCTTGTTTGCAAGCACGCTAGTTCGCTTAGTGGGTCGATCATTCGCATTTCGTTTTCCCAGCTGCAGAGTATATGA 1338 45.07 MTEPSKVIHVRNVGHEISENDLLQLFQPFGVITKLVMLRAKNQALIQMQDVPSAVNALQFFANVQPSIRGRNVYVQFSSHQELTTADQNAQGRGDEPNRILLVTIHHMLYPITVEVLHQVFFPHGFVEKIVTFQKSAGFQALIQYQTRQCAISARTALQGRNIYDGCCQLDIQFSNLDELQVNYNNERSRDFTNPSLPSEPKGRPSQQPGYGDAGGMYALQASGAGPVGFPQMANAAAVAAAFGGGLPPGVSGTNDRCTVLVSNLNPDRIDEDKLFNLFSIYGNIARIKLLRNKPDHALVQMGDGFQAELAVHFLKGAMLFGKRLEVNFSKHPNITQGADTHEYANSNLNRFNRNAAKNYRYCCSPTKMIHISSLSQEVTEEEIVNLLEEHGPIINTKLFEMNGKKQALIMFDTEEQATEALVCKHASSLSGSIIRISFSQLQSI 445
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
9 8837668 8847777 + CmaCh09G012850.1 Cma09g01285 301290

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma09g01285 445 SUPERFAMILY RNA-binding domain, RBD 3 91 IPR035979 GO:0003676
Cma09g01285 445 Gene3D - 255 352 IPR012677 -
Cma09g01285 445 CDD RRM1_PTBPH3 6 80 IPR034795 -
Cma09g01285 445 MobiDBLite consensus disorder prediction 188 213 - -
Cma09g01285 445 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 6 80 IPR000504 GO:0003723
Cma09g01285 445 MobiDBLite consensus disorder prediction 188 203 - -
Cma09g01285 445 SMART rrm1_1 7 76 IPR000504 GO:0003723
Cma09g01285 445 SMART rrm1_1 259 328 IPR000504 GO:0003723
Cma09g01285 445 SMART rrm1_1 369 438 IPR000504 GO:0003723
Cma09g01285 445 SMART rrm1_1 102 171 IPR000504 GO:0003723
Cma09g01285 445 CDD RRM4_PTBPH3 361 439 - -
Cma09g01285 445 PANTHER MATRIN 3/NUCLEAR PROTEIN 220-RELATED 1 444 - -
Cma09g01285 445 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 9 59 IPR000504 GO:0003723
Cma09g01285 445 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 372 433 IPR000504 GO:0003723
Cma09g01285 445 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 241 345 - -
Cma09g01285 445 Gene3D - 353 445 IPR012677 -
Cma09g01285 445 Gene3D - 1 96 IPR012677 -
Cma09g01285 445 PANTHER POLYPYRIMIDINE TRACT-BINDING PROTEIN HOMOLOG 3 1 444 - -
Cma09g01285 445 Pfam RRM-like domain 96 175 IPR021790 -
Cma09g01285 445 SUPERFAMILY RNA-binding domain, RBD 256 438 IPR035979 GO:0003676
Cma09g01285 445 Gene3D - 98 201 IPR012677 -
Cma09g01285 445 SUPERFAMILY RNA-binding domain, RBD 97 198 IPR035979 GO:0003676
Cma09g01285 445 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 258 332 IPR000504 GO:0003723
Cma09g01285 445 CDD RRM3_PTBPH3 257 332 IPR034797 -
Cma09g01285 445 TIGRFAM hnRNP-L_PTB: hnRNP-L/PTB/hephaestus splicing factor family 4 441 IPR006536 GO:0003723|GO:0005634|GO:0006397
Cma09g01285 445 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 368 442 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma09g01285 K14948 PTBP2, NPTB; polypyrimidine tract-binding protein 2 - csv:101210828 845.499
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma02g01104 Cma-Chr2:6554090 Cma09g01285 Cma-Chr9:8837668 3.35E-06 dispersed
Cma09g01285 Cma-Chr9:8837668 Cma15g01037 Cma-Chr15:6480474 7.75E-07 dispersed
Cma01g00928 Cma-Chr1:5750437 Cma09g01285 Cma-Chr9:8837668 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
Vvi18g1264 . . . . . Bpe04g00384 Bma04g00395 . . . . Cma09g01285 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Bma01g00827 . . . . . . . Car09g01099 . . . . . . . . . . . . . . . . . . Chy03g00283 Cme01g00709
       

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
OG0004715 2 1 2 2 1 1 2 1 0 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 2 1 1 3 1 2 41
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma09g01285 Cma_Chr09 FPKM 58.151566 56.137878 55.460983 53.856525 63.185898 75.502525 62.439373 50.841866 51.444019 50.440041