Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa07g00115 ATGGATTTTGACGAGTATGATTATTTGGAGAAAACAGTTGAAAATCCCGAGGGACAAAAAGTGAAGGAAACTGCCAATGGCGGTGATGGAGAAATGAAATCTGGAGATAAGCATCATAGTCGAAGTTCAAAATATAAGAGTGATGGTAAAGATGATGGGGAACATAGGTCAAAGCATTTGAAATCGGATGATGAGTCACGTGATCGAGATCGGCATAGAGATAGGACTTCTTCCCGGCATCGGTCTAGGTCCAGAGAGAGAGACCGTGATAGGCATCGAAGCAGTAAGGAAAATAGGGGAAAAGAGGACAGAGAAGGGAATCGGGAAGAGAGAAGCAGTAAGGACAGGGATGTGGACAGAGATAAAGAACGTTCTCACGATCGTGATAGACGGGGTAGAGATGGTGAAAGGAATAGGGAAAGAGAACAGTCACGTCGAAGTAGAAGTCGTTCAGAAAGACATCGCAGTGATCGGGATGATGGCATAAGAGAGAGGAGTCGAGACAATGAACTCAGGGAAAGAGAAAAGGAGAGAGAGTCTAGAGAGCGAGGCAGAGATGGCAGAAGATATAAAGATAAAAAGGACGAAACAGCTGAACCAGAAGCTGATCCTGAAAGGGATCAGAGGACTGTATTTGCCTATCAGATAAGTTTAAAGGCAACTGAAAGAGATGTGTACGAGTTCTTCTCCAGGGCTGGTAAGGTGCGAGATGTACGCCTCATAATGGATCGTAATTCACGACGTTCTAAAGGCGTTGGGTATGTTGAATTTGTGGATGCAATGTCTGTGCCCATGGCTATAGCACTTTCCGGCCAGCTCTTGCTTAGTCAGCCTGTGATGGTAAAGCCATCTGAAGCTGAGAAAAACCAGGTTCAATCAACTTCCGCAGCTGGTGGACCGGGTGGAGCAATGGGCCCCTACTCTGGTGGTGCCAGAAGGTTATATGTTGGCAATCTGCACCCCAACATAACTGAAGATAACCTTCGTCAGGTTTTTGGAGCTTTTGGCACTGTGGAACTGGTCCAGATGCCCGTTGATGAATCTGGCCATTGCAAGGGTTTTGGTTTTATTCAGTTCACACGTCTTGAAGATGCTAGAAATGCACTGAGTTTGAATGGACAACTTGAGATTGCTGGTCGAACGATAAAGGTGTCTACAGTCACAGATCAGCCTGGTTTGCAAGATGTTGGAGCAAGTACAGGAGACCTTGATGAGGAAGACGGCGGTGGCTTGTCTTTAAACGCTAGTTCTAGAGCATCCCTGATGCAGAAGCTGGACCGTACTGGTGCCGCATCTAGCATTGCTGGTTCTCTAGGTACACATGTTGTAAATAACACAGGTGCTACTATGCCGGCACCGATCCTTGGTGGTGCAACTATCCCATCCCTTAGTGTTGGTACTTCTTTGGCCGCCTTTCCTGCTTTTCCTGGACTTGGTGCAGGCGTTCAGGTTCCCCCCGTCACTGCCAATTTACTTGGTGTTGGTACTCCAAGTGAATGTCTACTGTTGAAGAATATGTTTGATCCTACAGCTGAGTCGGAACCAACTTTCGATCTGGATATCCGAGATGACGTTGAAGAGGAATGCTCTAGGTTCGGAAAATTGAAACATATATATGTTGACAGGAATAGTGCCGGTTTTGTATATTTGAGGTTTGAAAAATCGGAGTCTGCAATGGAAGCCCAACGTGCCCTTAATGGAAGATGGTTTGCGGGGAAAATGATTGGTGCAACTTTCATGGACATTCCAAGCTATGAAGCGAAATTTCCAGACAGTAGATAA 1782 46.02 MDFDEYDYLEKTVENPEGQKVKETANGGDGEMKSGDKHHSRSSKYKSDGKDDGEHRSKHLKSDDESRDRDRHRDRTSSRHRSRSRERDRDRHRSSKENRGKEDREGNREERSSKDRDVDRDKERSHDRDRRGRDGERNREREQSRRSRSRSERHRSDRDDGIRERSRDNELREREKERESRERGRDGRRYKDKKDETAEPEADPERDQRTVFAYQISLKATERDVYEFFSRAGKVRDVRLIMDRNSRRSKGVGYVEFVDAMSVPMAIALSGQLLLSQPVMVKPSEAEKNQVQSTSAAGGPGGAMGPYSGGARRLYVGNLHPNITEDNLRQVFGAFGTVELVQMPVDESGHCKGFGFIQFTRLEDARNALSLNGQLEIAGRTIKVSTVTDQPGLQDVGASTGDLDEEDGGGLSLNASSRASLMQKLDRTGAASSIAGSLGTHVVNNTGATMPAPILGGATIPSLSVGTSLAAFPAFPGLGAGVQVPPVTANLLGVGTPSECLLLKNMFDPTAESEPTFDLDIRDDVEEECSRFGKLKHIYVDRNSAGFVYLRFEKSESAMEAQRALNGRWFAGKMIGATFMDIPSYEAKFPDSR* 594
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 1012143 1023818 - CsaV3_7G001150.1 Csa07g00115 535678

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa07g00115 593 Pfam linker between RRM2 and RRM3 domains in RBM39 protein 403 517 IPR029123 -
Csa07g00115 593 Gene3D - 495 593 IPR012677 -
Csa07g00115 593 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 499 582 IPR000504 GO:0003723
Csa07g00115 593 SUPERFAMILY RNA-binding domain, RBD 312 579 IPR035979 GO:0003676
Csa07g00115 593 CDD RRM1_RBM39_like 210 282 - -
Csa07g00115 593 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 314 383 IPR000504 GO:0003723
Csa07g00115 593 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 219 277 IPR000504 GO:0003723
Csa07g00115 593 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 523 574 IPR000504 GO:0003723
Csa07g00115 593 PANTHER CC1-LIKE SPLICING FACTOR 1 589 - -
Csa07g00115 593 SMART rrm2_1 313 385 IPR003954 GO:0003676
Csa07g00115 593 SMART rrm2_1 500 578 IPR003954 GO:0003676
Csa07g00115 593 PANTHER SPLICING FACTOR (PAD-1), PUTATIVE (AFU_ORTHOLOGUE AFUA_1G15810)-RELATED 1 589 - -
Csa07g00115 593 SUPERFAMILY RNA-binding domain, RBD 202 310 IPR035979 GO:0003676
Csa07g00115 593 MobiDBLite consensus disorder prediction 1 208 - -
Csa07g00115 593 SMART rrm1_1 313 385 IPR000504 GO:0003723
Csa07g00115 593 SMART rrm1_1 210 282 IPR000504 GO:0003723
Csa07g00115 593 SMART rrm1_1 500 578 IPR000504 GO:0003723
Csa07g00115 593 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 209 286 IPR000504 GO:0003723
Csa07g00115 593 TIGRFAM SF-CC1: splicing factor, CC1-like family 83 591 IPR006509 GO:0003723|GO:0005634|GO:0006397
Csa07g00115 593 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 312 389 IPR000504 GO:0003723
Csa07g00115 593 Gene3D - 300 392 IPR012677 -
Csa07g00115 593 Gene3D - 151 297 IPR012677 -
Csa07g00115 593 CDD RRM3_RBM39_like 498 581 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa07g00115 K13091 RBM23_39; RNA-binding protein 23/39 - csv:101209872 1004.2
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g02836 Csa-Chr3:27125139 Csa07g00115 Csa-Chr7:1012143 3.31E-07 dispersed
Csa05g02975 Csa-Chr5:30068479 Csa07g00115 Csa-Chr7:1012143 9.80E-07 dispersed
Csa06g02820 Csa-Chr6:24601941 Csa07g00115 Csa-Chr7:1012143 0 dispersed
Csa06g03144 Csa-Chr6:26840339 Csa07g00115 Csa-Chr7:1012143 6.29E-10 dispersed
Csa07g00115 Csa-Chr7:1012143 Csa01g01085 Csa-Chr1:6732660 5.93E-15 dispersed
Csa07g00115 Csa-Chr7:1012143 Csa04g02386 Csa-Chr4:24187265 1.64E-15 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
Vvi3g183 . . . Bda08g00985 . . Bma05g00377 . . . . . . . Sed05g2245 . . Bhi05g01691 Tan02g0661 Cmetu01g1207 . Hepe02g0413 . . Cla02g00412 Cam02g0421 Cec02g0420 Cco02g0438 Clacu02g0423 Cmu02g0418 Cre02g0752 Cone12ag1242 Cone8ag1298 . . . Csa07g00115 . Cme01g01244 . . . . . . . . . . . . . . Car19g00582 . . . . . . . . . . . . . . . . . . Chy01g00667 .
       

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
OG0002135 1 5 1 2 2 2 3 2 2 2 2 2 2 2 2 3 2 4 3 2 2 2 2 1 2 1 2 3 2 2 65
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa07g00115 Csa_Chr07 FPKM 222.069733 226.907333 227.139053 209.314514 253.687927 298.663422 239.114151 190.022903 187.387115 174.468613