Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa07g00016 ATGGGAAAGAACAGAAGGCTTAAGGACGGCGCCGATAAGGGAGCCGCCGCCGGCGACCACTGCCCTTCCACAGTCTTTGTCAACAACTTCCCGTACTCGTTCACCAACTCACAGCTTGAAGAAACATTCAGTGATGTTGGACCGGTCCGGCGGTGCTTCATGGTTACCCAAAAGGGTTCAACCGAGCATCGTGGTTTTGGATTCGTGCAGTTTGCTGTAGCAGAAGATGCAAATCGAGCAATTCAGCTGAAAAATGGACTGTCTTTTGAAGGACGCAAAATTACTGTCAAACATGCTATGCATCGAGCTCCCCTTGAGCAGAGACGGTCAAAAGAAAATCAAGTTGCTGGATCTACACTAGCAGCTAACGAGGAAGGAGATACTTCTAAAATGGAAGAACATCCAACTACCAAGGATAAAGGAACTTCTAAAAGGGATGTACAACCAATCAATGAGGAACGAGATACTTCTAAAAGGGCAGAACAAACAATTTCAAATTCTGAGGGGAAAGAGAGACATTTGAGTGCTAGAAAATTAGCTCCACTTTCTAGTTATCTAGAGGATAAAGAGGGTCATTCAGGAAAGCAAAGGATTGCACGGACTGTTGTCATTGGCGGTCTTCTTGATGGTGATATGGCTGAAGATGTTCACCGCCAAGTGAGAGATGTTGGTGGCGTATGCTCAATTGTCTATCCTCTTCCCAGAAAAGAAGTTGAACAACATGGTATTTTACGAGATGGATGCAAAATGGATGTCTCTGCTGTACTTTTTGATAGTGTGAAGTCTGCACGTGCTGCTGTTGCTATATTACACCAGAAAGAGATGAAAGGAGGTGTTGTATGGGCTCGCCAACTGGGTGGGGAGGGGTCCAAAACTCAGAAATGGAAAGTTATTGTTAGAAATCTTCCATTTAAGGCCAAGGAGAAAGAAATAAAGAATACCTTTTCATCTGCGGGATTTGTGTGGGATGTGATGATGCCACAAAATTCAGACACTGGATTATCAAAGGGGTTTGCGTTTGTCAAATTTACATGCAAGCAGGATGCTGAGAGTGCTATTCAAAAGTTCAATGGTAAAAAATTTGGTCAAAGGACGATAGCTGTGGACTGGGCTGTTCCAAAGAAGATATATAGTTCTGGTGGTGGTGCTACTGCTCCAGTTGATTCAGATGACGAGGATCAGACTGAAAGAGACAGAGAAGGTAGCATTAGTGGTAGTGATTCCAGAGATGAAAATACTGGTCATAACGAATCTGAAAGTTCTTCAGAGGATTCGGAGAAAGAGGATATTTCCTCGGAGGTTGATTTTGAAGGAGAAACAGAAATTGCAAGAAAAGTTCTTGAAACTCTAATTTCATCTTCGGCTAAAGAGGCTCTTCCTTCTCTCACTGATGGTAACCCACCATCTAAAGTGAACAAGGAGCCAGATTTTGATTCATCCAAGAAATCATCCGATATGTCTGATAAAGTATCAAATGAACCTGGAAAGTTAAGTGAAAGCAAGACATCTATTCTTAAGCAAACAGATGAAGAAGATTTGAAGAGAACGGTTTATATAGGCAATCTTCCTTTTGATATTGATAATGAAGAAGTGAAACAGCGGTTTTCTGGATTCGGTGAAGTATTATCCTTTGTGCCAGTCCTTCATCAAGTTACAAAGCGACCTAAAGGCACTGGTTTTCTCAAGTTTAAAACCGCAGATGCTGCTAATGTTGCTGTTTCTTCTGCAAATGCTGCATCTGGTGTGGGAATATTTCTGAAAGGCAGGCAACTGAAAGTATTGAATGCCTTGGATAAGAAATCAGCTCAAGACAAGGAATTGGAGAAGTCAAAAAATGACAATCATGACCACCGGAATCTTTACCTTGCACAGGAAGGTATTATTCTCGAGGGAACTCCAGCTGCTGAAGGAGTTTCTGCTAGCGACATGGAGAAACGTCAAAGGCTGGAAAAGAAAAGAACAACCAAGCTTCAATCTCCAAATTTTCATGTTTCAAGGACTAGGCTCGTTATACATAACTTACCAAAATCAATGAAAGAAAAAGAACTTCACAAACTTTGCATTGAAGCTGTTACCTCTCGAGCTACGAAGCAAAAGCCCGTGATTCGCCAGATTAAATTCTTAAAGGATGTTAAGAAAGGAAAGATGCTGACAAAAAATCACTCATGTGGAGTCGCTTTTATCGAGTTTTCTGAGCATGAGCATGCCCTTGTAGCCTTGCGAGTTCTCAACAACAATCCAGAAACTTTTGGCCCTATAAATCGCCCAATCGTGGAGTTTGCTATTGACAATGTTCAAACGCTGAAGCTGCGTAAAGCCAAGTTACAAGCTTGGTCGCAGGACAATAATATTGCCAATATTCCCAAAGCAAGGCAGCGAAAGGATGACTCTGATACAAATGCTAGGGATATCCATTCAAACGAGAACAATTCCAGAAAAAGGAAAGCAATAGGAAATAATCATCTGGTGAAGGCACAGAATCGTAACGAAGATGAAAATGACAATCATGTATCCAATAATGTGATGCAAGACAATAGAGACAGAAAAAAGAGGAAAACACGTCCAGATTTTGGAAATACAAACGAGTCACAGAAACAAAAACCAGGACGAAGTTCGATGCCTGAAAAATCAAGCAAGAGACCGGCATCCATGGATTCTGAAAAGAAAATAGAAGTTTCCCAGGAAGCTGATGTACAACACAAAAAGAAGGTAAAACATCAAGTAGAGCAGCAGCAGAGGAAGAGGCCAAAGAAAAACAAGGAACCAATAGGACGGGATATTGTAGATAAACTCGATGTGCTTATCGAACAATATCAATCCAAGTTTTTGCAGCAAAGGTCAGACCGAACGGATGGTGAAAAGAAAGGGACTAAACAGGTTAGAAGATGGTTCCAATCATAA 2901 41.47 MGKNRRLKDGADKGAAAGDHCPSTVFVNNFPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQFAVAEDANRAIQLKNGLSFEGRKITVKHAMHRAPLEQRRSKENQVAGSTLAANEEGDTSKMEEHPTTKDKGTSKRDVQPINEERDTSKRAEQTISNSEGKERHLSARKLAPLSSYLEDKEGHSGKQRIARTVVIGGLLDGDMAEDVHRQVRDVGGVCSIVYPLPRKEVEQHGILRDGCKMDVSAVLFDSVKSARAAVAILHQKEMKGGVVWARQLGGEGSKTQKWKVIVRNLPFKAKEKEIKNTFSSAGFVWDVMMPQNSDTGLSKGFAFVKFTCKQDAESAIQKFNGKKFGQRTIAVDWAVPKKIYSSGGGATAPVDSDDEDQTERDREGSISGSDSRDENTGHNESESSSEDSEKEDISSEVDFEGETEIARKVLETLISSSAKEALPSLTDGNPPSKVNKEPDFDSSKKSSDMSDKVSNEPGKLSESKTSILKQTDEEDLKRTVYIGNLPFDIDNEEVKQRFSGFGEVLSFVPVLHQVTKRPKGTGFLKFKTADAANVAVSSANAASGVGIFLKGRQLKVLNALDKKSAQDKELEKSKNDNHDHRNLYLAQEGIILEGTPAAEGVSASDMEKRQRLEKKRTTKLQSPNFHVSRTRLVIHNLPKSMKEKELHKLCIEAVTSRATKQKPVIRQIKFLKDVKKGKMLTKNHSCGVAFIEFSEHEHALVALRVLNNNPETFGPINRPIVEFAIDNVQTLKLRKAKLQAWSQDNNIANIPKARQRKDDSDTNARDIHSNENNSRKRKAIGNNHLVKAQNRNEDENDNHVSNNVMQDNRDRKKRKTRPDFGNTNESQKQKPGRSSMPEKSSKRPASMDSEKKIEVSQEADVQHKKKVKHQVEQQQRKRPKKNKEPIGRDIVDKLDVLIEQYQSKFLQQRSDRTDGEKKGTKQVRRWFQS* 967
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 309072 324987 + CsaV3_7G000160.1 Csa07g00016 535579

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa07g00016 966 SMART rrm2_1 296 369 IPR003954 GO:0003676
Csa07g00016 966 SMART rrm2_1 24 97 IPR003954 GO:0003676
Csa07g00016 966 SMART rrm1_1 24 97 IPR000504 GO:0003723
Csa07g00016 966 SMART rrm1_1 296 369 IPR000504 GO:0003723
Csa07g00016 966 SMART rrm1_1 668 759 IPR000504 GO:0003723
Csa07g00016 966 SMART rrm1_1 516 594 IPR000504 GO:0003723
Csa07g00016 966 MobiDBLite consensus disorder prediction 859 879 - -
Csa07g00016 966 Gene3D - 491 616 IPR012677 -
Csa07g00016 966 CDD RRM3_RBM28_like 515 596 - -
Csa07g00016 966 CDD RRM1_RBM28_like 24 102 - -
Csa07g00016 966 CDD RRM4_RBM28_like 667 764 - -
Csa07g00016 966 Gene3D - 282 422 IPR012677 -
Csa07g00016 966 Gene3D - 2 115 IPR012677 -
Csa07g00016 966 MobiDBLite consensus disorder prediction 941 966 - -
Csa07g00016 966 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 295 373 IPR000504 GO:0003723
Csa07g00016 966 MobiDBLite consensus disorder prediction 111 125 - -
Csa07g00016 966 Gene3D - 666 761 IPR012677 -
Csa07g00016 966 MobiDBLite consensus disorder prediction 390 427 - -
Csa07g00016 966 SUPERFAMILY RNA-binding domain, RBD 23 281 IPR035979 GO:0003676
Csa07g00016 966 MobiDBLite consensus disorder prediction 788 815 - -
Csa07g00016 966 PANTHER RNA-BINDING MOTIF PROTEIN, Y CHROMOSOME, FAMILY 1 MEMBER C-RELATED 9 397 - -
Csa07g00016 966 PANTHER RNA-BINDING MOTIF PROTEIN, Y CHROMOSOME, FAMILY 1 MEMBER C-RELATED 505 782 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 880 905 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 825 858 - -
Csa07g00016 966 SUPERFAMILY RNA-binding domain, RBD 515 744 IPR035979 GO:0003676
Csa07g00016 966 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 667 775 IPR000504 GO:0003723
Csa07g00016 966 PANTHER RNA BINDING PROTEIN 505 782 - -
Csa07g00016 966 PANTHER RNA BINDING PROTEIN 9 397 - -
Csa07g00016 966 Coils Coil 150 170 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 946 960 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 474 495 - -
Csa07g00016 966 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 25 94 IPR000504 GO:0003723
Csa07g00016 966 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 297 366 IPR000504 GO:0003723
Csa07g00016 966 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 517 577 IPR000504 GO:0003723
Csa07g00016 966 MobiDBLite consensus disorder prediction 126 176 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 379 438 - -
Csa07g00016 966 CDD RRM2_RBM28_like 296 372 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 457 505 - -
Csa07g00016 966 MobiDBLite consensus disorder prediction 784 926 - -
Csa07g00016 966 SUPERFAMILY RNA-binding domain, RBD 291 383 IPR035979 GO:0003676
Csa07g00016 966 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 515 598 IPR000504 GO:0003723
Csa07g00016 966 MobiDBLite consensus disorder prediction 101 176 - -
Csa07g00016 966 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 23 101 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa07g00016 K14573 NOP4, RBM28; nucleolar protein 4 - csv:101217384 1855.49
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa07g00016 Csa-Chr7:309072 Csa06g03895 Csa-Chr6:30790409 1.23E-07 dispersed
Csa07g00016 Csa-Chr7:309072 Csa01g00598 Csa-Chr1:3847507 6.34E-10 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
Vvi3g6 . . . Bda08g00947 . . Bma05g00433 . . . . . . . . . Cpe15g00552 . . . . . . . . . . . . . . . . Cone3ag1223 Cone10ag1108 . Csa07g00016 . Cme01g01366 . . . . . Bpe05g00327 . . . . . . . . Car19g00524 . . . . . . . . . . . . . . . . Lsi11g01124 . Chy01g00761 .
       

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
OG0009278 1 1 1 3 1 1 1 1 1 1 1 1 0 1 2 1 1 2 1 1 1 1 1 1 1 1 1 2 1 1 34
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa07g00016 Csa_Chr07 FPKM 1.964052 0.0 12.710579 15.067142 22.415859 23.492867 23.429232 12.577027 10.746066 9.737318