Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma01g00928 ATGACTGAACCATCAAAAGTCATTCACGTCCGAAATGTTGGCCATGAAATATCCGAGAATGATTTGCTTCAGTTATTCCAGCCATTTGGTGTCATAACTAAGCTTGTGATGCTTCGTGCTAAAAATCAGGCTCTTATCCAGATGCAAGATGTTCCCTCAGCAGTTAATGCTTTACAGTTCTTTGCGAATGTTCAACCGAGCATTAGGGGGAGGAATGTTTATGTCCAGTTTTCATCGCATCAAGAGCTAACTACAGCAGATCAAAATGCTCAAGGACGAGGAGATGAGCCAAATCGAATACTCTTAGTCACAATCCATCACATGCTATATCCCATTACAGTGGAAGTGCTGCATCAAGTGTTTTTCCCACATGGATTTGTGGAGAAGATCGTGACATTTCAGAAGTCAGCTGGTTTTCAGGCCCTTATTCAGTATCAATCTCGCCAGTGTGCTGTTTCTGCTAGGACTGCATTACAGGGGCGCAATATATATGATGGTTGCTGCCAGCTAGACATTCAGTTCTCCAATCTTGATGAGTTACAGGTGAACTACAATAACGAACGTTCAAGGGATTTCACAAATCCTAATCTGCCTTCTGAACCAAAAGGCCGGTCATCGCAACCTGGATATGGCGATGCAGGTGGCATGTATGGAGTTCAAGCATCTGGAGCAAGACCAGTTGCACTACCACAGATGGCAAACGCAGCTGCTGTTGCTGCTGCATTTGGAGGAGGTTTGCCACCTGGTATTAGTGGGACAAATGACAGGTGTACAGTCCTTGTATCCAATCTGAATCCTGATCAAATTGATGAAGACAAGCTTTTTAACCTTTTCTCCATCTACGGTAACATTGTAAGAATTAAGCTTCTCCGAAATAAACCTGATCATGCACTTGTTCAGATGGGAGATGGATTCCAGGCGGAATTAGCTGTGCACTTTTTGAAGGGAGCGATGTTGTTTGGCAAGAGATTGGAGGTTAACTTCTCAAAGCATCCTAACATTACGCAAGGGGCTGACACTCGTGAATACGCCAACTCAAATCTTAATCGTTTTAACCGAAATGCTGCGAAGAACTACCGTTACTGCTGCTCTCCGACAAAGATTATCCACATTTCATCTCTATCCCAGGAAGTAACTGAAGAAGAAATTGTGAATTTACTCGAGGAACACATGCCAATTGTCAACACCAAGCTCTTCGAGATGAATGGGAAAAGGCAGGCACTCATCATGTTCGACACTGAGGAGCAGGCCACCGAGGCTCTTGTTTGCAAGCACGCTACTTCGCTTGGTGGGTCAATCATTCGCATTTCATTTTCCCAGTTGCAGACTATATGA 1335 44.04 MTEPSKVIHVRNVGHEISENDLLQLFQPFGVITKLVMLRAKNQALIQMQDVPSAVNALQFFANVQPSIRGRNVYVQFSSHQELTTADQNAQGRGDEPNRILLVTIHHMLYPITVEVLHQVFFPHGFVEKIVTFQKSAGFQALIQYQSRQCAVSARTALQGRNIYDGCCQLDIQFSNLDELQVNYNNERSRDFTNPNLPSEPKGRSSQPGYGDAGGMYGVQASGARPVALPQMANAAAVAAAFGGGLPPGISGTNDRCTVLVSNLNPDQIDEDKLFNLFSIYGNIVRIKLLRNKPDHALVQMGDGFQAELAVHFLKGAMLFGKRLEVNFSKHPNITQGADTREYANSNLNRFNRNAAKNYRYCCSPTKIIHISSLSQEVTEEEIVNLLEEHMPIVNTKLFEMNGKRQALIMFDTEEQATEALVCKHATSLGGSIIRISFSQLQTI 444
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 5750437 5761210 - CmaCh01G009280.1 Cma01g00928 286621

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma01g00928 444 MobiDBLite consensus disorder prediction 188 211 - -
Cma01g00928 444 PANTHER MATRIN 3/NUCLEAR PROTEIN 220-RELATED 1 443 - -
Cma01g00928 444 SUPERFAMILY RNA-binding domain, RBD 3 91 IPR035979 GO:0003676
Cma01g00928 444 SUPERFAMILY RNA-binding domain, RBD 255 439 IPR035979 GO:0003676
Cma01g00928 444 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 371 434 IPR000504 GO:0003723
Cma01g00928 444 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 9 59 IPR000504 GO:0003723
Cma01g00928 444 CDD RRM1_PTBPH3 6 80 IPR034795 -
Cma01g00928 444 Pfam RRM-like domain 96 175 IPR021790 -
Cma01g00928 444 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 6 80 IPR000504 GO:0003723
Cma01g00928 444 MobiDBLite consensus disorder prediction 188 203 - -
Cma01g00928 444 CDD RRM2_PTBPH3 97 184 IPR034796 -
Cma01g00928 444 CDD RRM4_PTBPH3 360 438 - -
Cma01g00928 444 CDD RRM3_PTBPH3 256 331 IPR034797 -
Cma01g00928 444 TIGRFAM hnRNP-L_PTB: hnRNP-L/PTB/hephaestus splicing factor family 4 440 IPR006536 GO:0003723|GO:0005634|GO:0006397
Cma01g00928 444 Gene3D - 98 201 IPR012677 -
Cma01g00928 444 Gene3D - 254 349 IPR012677 -
Cma01g00928 444 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 240 341 - -
Cma01g00928 444 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 367 441 IPR000504 GO:0003723
Cma01g00928 444 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 257 331 IPR000504 GO:0003723
Cma01g00928 444 PANTHER POLYPYRIMIDINE TRACT-BINDING PROTEIN HOMOLOG 3 1 443 - -
Cma01g00928 444 SUPERFAMILY RNA-binding domain, RBD 97 198 IPR035979 GO:0003676
Cma01g00928 444 SMART rrm1_1 102 171 IPR000504 GO:0003723
Cma01g00928 444 SMART rrm1_1 258 327 IPR000504 GO:0003723
Cma01g00928 444 SMART rrm1_1 368 437 IPR000504 GO:0003723
Cma01g00928 444 SMART rrm1_1 7 76 IPR000504 GO:0003723
Cma01g00928 444 Gene3D - 350 444 IPR012677 -
Cma01g00928 444 Gene3D - 1 96 IPR012677 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma01g00928 K14948 PTBP2, NPTB; polypyrimidine tract-binding protein 2 - csv:101210828 830.476
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma01g00928 Cma-Chr1:5750437 Cma02g01104 Cma-Chr2:6554090 2.35E-24 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
Vvi18g1355 . . Bda01g00863 . . . . . . . Cma01g00928 . . . . Cpe06g00967 . Bhi04g02176 . . . . . . Cla08g00080 Cam08g0077 Cec08g0174 Cco08g0134 Clacu08g0090 Cmu08g0089 Cre08g0078 . . . . . . . Cme03g00918 Blo17g00141 Blo18g00151 . Bda13g01425 Bpe02g01100 . Bma01g01436 Bma02g00160 . . . . . . . . . . . . . . . . . . . . . . . Lsi08g00243 . Chy03g00268 .
       

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
Cma01g00928 Cma_Chr01 FPKM 24.306784 26.859919 16.004339 16.966536 30.039654 30.962931 28.211912 26.382334 26.456161 27.90626