Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa03g01166 ATGGCCGCCGCCGCTGCCGCCACCGGAGCCTCCTTCTTCGCCACTTCCTTAAGGGGTTCACGGTCCAAGCACTGGCTCTCTGATTCTCTCCTCGCAACCCCATCCACTCAAGTTTTGCCTATATTGTCCCGCTCTCTAGCCATTGAATCGCCTCTGCTCAGAGCTTCCTCGGAGAAGTGGCGGCCGGTTATGATAATCTCGGCCGCCGTTGTGCAAGGAGAGACCGCTGTGACGGTTGGAGTTGAAGAGGGTGTGGAGGAGGAGACGGAGGTGGAAGGTGGTTCTCCAGTGGAGTCTGGGAGTACTAAGCTGTACTTTGGGAATCTGCCTTACAGTGTTGATAGTTCACAGCTCGCCGCTATCGTTCAGGATTATGGTATCGCCGAGCTCATTGAGGTTCTATATGACAGGAATACTGGAAAAAGTAGAGGATTTGCATTTGTAACCATGAGCAGTATTGAAGATTGCAATAAAGTGATTGAAAATCTGGATGGATCTGCTTACATGGGCAGAATTTTGAGGGTTAATTTCTCAGACAAACCCAAGCCCAAGGAACCTTTGTATCCAGAAACTGAGTATAAACTTTTTGTCGGAAACTTATCTTGGTCAGTAACATCTGAAATTTTGACACAAGCATTTCAAGAATATGGAAATGTGGTAGGAGCAAGAGTCATTTATGACGGGGAGACCGGAAAGTCACGTGGTTATGGCTTTGTTTCTTATTCAACAAAATCAGAAATGGAAACAGCTCTTGAAACTATTAATGAACTGGAACTTGAAGGCAGGGTAATACGTGTAAGCTTGGCTGAAGGAAAACAGGCACATGGGTAG 831 46.93 MAAAAAATGASFFATSLRGSRSKHWLSDSLLATPSTQVLPILSRSLAIESPLLRASSEKWRPVMIISAAVVQGETAVTVGVEEGVEEETEVEGGSPVESGSTKLYFGNLPYSVDSSQLAAIVQDYGIAELIEVLYDRNTGKSRGFAFVTMSSIEDCNKVIENLDGSAYMGRILRVNFSDKPKPKEPLYPETEYKLFVGNLSWSVTSEILTQAFQEYGNVVGARVIYDGETGKSRGYGFVSYSTKSEMETALETINELELEGRVIRVSLAEGKQAHG* 277
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 9105763 9108164 - CsaV3_3G011660.1 Csa03g01166 522071

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa03g01166 276 Gene3D - 74 183 IPR012677 -
Csa03g01166 276 Gene3D - 184 276 IPR012677 -
Csa03g01166 276 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 195 265 IPR000504 GO:0003723
Csa03g01166 276 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 104 173 IPR000504 GO:0003723
Csa03g01166 276 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 193 271 IPR000504 GO:0003723
Csa03g01166 276 SUPERFAMILY RNA-binding domain, RBD 97 185 IPR035979 GO:0003676
Csa03g01166 276 PANTHER TRANSFORMER-2-RELATED 138 178 - -
Csa03g01166 276 PANTHER TRANSFORMER-2-RELATED 184 273 - -
Csa03g01166 276 PANTHER TRANSFORMER-2-RELATED 78 141 - -
Csa03g01166 276 PANTHER 31 KDA RIBONUCLEOPROTEIN, CHLOROPLASTIC 78 141 - -
Csa03g01166 276 PANTHER 31 KDA RIBONUCLEOPROTEIN, CHLOROPLASTIC 138 178 - -
Csa03g01166 276 PANTHER 31 KDA RIBONUCLEOPROTEIN, CHLOROPLASTIC 184 273 - -
Csa03g01166 276 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 102 180 IPR000504 GO:0003723
Csa03g01166 276 SMART rrm1_1 103 176 IPR000504 GO:0003723
Csa03g01166 276 SMART rrm1_1 194 267 IPR000504 GO:0003723
Csa03g01166 276 SUPERFAMILY RNA-binding domain, RBD 188 273 IPR035979 GO:0003676
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa03g01166 - - - csv:101203203 478.404
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g01166 Csa-Chr3:9105763 Csa03g03277 Csa-Chr3:29938431 1.80E-11 dispersed
Csa06g00479 Csa-Chr6:4054994 Csa03g01166 Csa-Chr3:9105763 1.95E-08 dispersed
Csa03g01166 Csa-Chr3:9105763 Csa07g02046 Csa-Chr7:19815206 4.47E-14 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
Vvi5g784 . . Bda03g01097 . Bpe04g00983 . Bma04g01022 . . . . Cma14g01844 . . . Cpe08g00361 Cpe03g01544 . . . . . . . . . . . . . . Cone14ag0183 Cone15ag0192 . . Lsi05g01774 . . Cme06g00447 . . . . . . . . . Cmo06g01297 Cmo14g01887 . . . . . . . . . . . . . Cla05g00406 Cam05g0443 Cec05g0451 Cco05g0451 Clacu05g0440 Cmu05g0418 Cre05g0480 . Csa03g01166 Chy06g00428 .
       

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
OG0012811 1 0 0 1 1 1 1 1 1 1 1 1 1 0 1 2 1 2 2 1 1 1 1 1 0 1 1 1 0 1 28
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa03g01166 Csa_Chr03 FPKM 0.0 0.0 0.0 0.0 1.636997 1.369622 1.808846 0.0 0.0 0.0