Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Bma03g00959 ATGGCGGAAGAGAGATTGACTGGTGTTGTGCAATGGTTCAATGACTCCAAGGGTTTCGGTTTCATCAAGCCTGACGGAGACGGTCCAGATCTCTTTGTCCATCAGTCTTCGATCCAGTCCGATGGCTACCGCCGGCTTGCCGAGGGCGACCAAGTGGCGTTCCAGGTCGCTCCTGGGGACGATGGAAAGTCTAAAGCTGTAGATGTTGTCGTTATTGATGGATCTTCATTTCAAGGCGACAGGACGGATGGTTATGGTGATGGAAGAGATAGGCGTGGCGGTGGCGGTGGCTATGGTTTTGGGGGTGGTTGGAGAGGTGGTGACAGGCGAAGCGGAGGTGGAGCTGGCTGCTATAATTGCGGTGATCCAGATCATTTGGCTAGGGATTGCGGTCGTGCTAATAATCGTGGGGGAGTTGGCGGTGGGTGCTATTCTTGTGGGGAGGGTGGTCACTTGGCTAGGGATTGCCCTCGAGGCAGCGGTGGTGGTGGAGGTGGAGGTAGTGGAGCGGGTTCTTGCTACAATTGTGGTGGCTTTGGACACATGGCGAGAGATTGCAATTCCAGAAGCAGTGGAGGTGGAGGCGGAGGCGGAGGTGGTTGCTTTAAGTGCGGGGAATACGGGCATTTAGCTCGGGATTGCAGCGGCGGAAGCAGCAATTTCGGCAGAGGTGGAAGATTTGGAGGCGGTAGTGGAGGAGGTGGTGGTAGCACCTGCTTCAATTGTGGGAAGGCTGGACACTTTGCGAGAGAGTGTCCTGGTGCAAATTAA 771 55.38 MAEERLTGVVQWFNDSKGFGFIKPDGDGPDLFVHQSSIQSDGYRRLAEGDQVAFQVAPGDDGKSKAVDVVVIDGSSFQGDRTDGYGDGRDRRGGGGGYGFGGGWRGGDRRSGGGAGCYNCGDPDHLARDCGRANNRGGVGGGCYSCGEGGHLARDCPRGSGGGGGGGSGAGSCYNCGGFGHMARDCNSRSSGGGGGGGGGCFKCGEYGHLARDCSGGSSNFGRGGRFGGGSGGGGGSTCFNCGKAGHFARECPGAN 256
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 10191490 10192260 - Bma017298.1 Bma03g00959 79632

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Bma03g00959 256 ProSiteProfiles Zinc finger CCHC-type profile. 201 214 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 PANTHER COLD SHOCK DOMAIN PROTEIN 2 135 255 - -
Bma03g00959 256 PANTHER COLD SHOCK DOMAIN PROTEIN 2 1 110 - -
Bma03g00959 256 ProSiteProfiles Zinc finger CCHC-type profile. 173 186 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 PRINTS Cold shock protein signature 29 38 IPR002059 GO:0003676
Bma03g00959 256 PRINTS Cold shock protein signature 8 23 IPR002059 GO:0003676
Bma03g00959 256 PRINTS Cold shock protein signature 44 62 IPR002059 GO:0003676
Bma03g00959 256 MobiDBLite consensus disorder prediction 78 105 - -
Bma03g00959 256 PANTHER COLD SHOCK PROTEIN 2 135 255 - -
Bma03g00959 256 SUPERFAMILY Nucleic acid-binding proteins 4 75 IPR012340 -
Bma03g00959 256 PANTHER COLD SHOCK PROTEIN 2 1 110 - -
Bma03g00959 256 Gene3D - 167 195 - -
Bma03g00959 256 Gene3D - 197 225 - -
Bma03g00959 256 Gene3D - 234 256 - -
Bma03g00959 256 PANTHER COLD SHOCK DOMAIN PROTEIN 2 111 141 - -
Bma03g00959 256 ProSiteProfiles Zinc finger CCHC-type profile. 239 253 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART csp_8 7 72 IPR011129 GO:0003676
Bma03g00959 256 ProSiteProfiles Zinc finger CCHC-type profile. 117 130 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SUPERFAMILY Retrovirus zinc finger-like domains 106 159 IPR036875 GO:0003676|GO:0008270
Bma03g00959 256 Gene3D - 114 164 - -
Bma03g00959 256 SUPERFAMILY Retrovirus zinc finger-like domains 224 254 IPR036875 GO:0003676|GO:0008270
Bma03g00959 256 PANTHER COLD SHOCK PROTEIN 2 111 141 - -
Bma03g00959 256 CDD CSP_CDS 7 71 IPR002059 GO:0003676
Bma03g00959 256 ProSitePatterns Cold-shock (CSD) domain signature. 19 38 IPR019844 -
Bma03g00959 256 ProSiteProfiles Cold-shock (CSD) domain profile. 5 71 IPR002059 GO:0003676
Bma03g00959 256 ProSiteProfiles Zinc finger CCHC-type profile. 143 158 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART c2hcfinal6 172 188 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART c2hcfinal6 238 254 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART c2hcfinal6 142 158 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART c2hcfinal6 200 216 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SMART c2hcfinal6 116 132 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 SUPERFAMILY Retrovirus zinc finger-like domains 172 215 IPR036875 GO:0003676|GO:0008270
Bma03g00959 256 Gene3D - 1 70 IPR012340 -
Bma03g00959 256 Pfam Zinc knuckle 172 187 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 Pfam Zinc knuckle 238 253 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 Pfam Zinc knuckle 200 215 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 Pfam Zinc knuckle 116 130 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 Pfam Zinc knuckle 142 157 IPR001878 GO:0003676|GO:0008270
Bma03g00959 256 Pfam 'Cold-shock' DNA-binding domain 7 71 IPR002059 GO:0003676
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Bma03g00959 K09250 CNBP; cellular nucleic acid-binding protein - csv:101216334 275.404
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Bma03g00959 Bma06g00094 BCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Bma03g00959 Bma-Chr3:10191490 Bma13g00826 Bma-Chr13:33125334 7.76E-11 dispersed
Bma03g00959 Bma-Chr3:10191490 Bma06g00094 Bma-Chr6:1428808 1.83E-98 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
Vvi4g1119 Blo04g00883 . . . Bpe15g00473 Bpe13g00413 . . . . . . . . . . . . . . . . . . . . . . . . . Cone8ag0853 Cone12ag0714 Cone6ag1686 . . . . . . . Bda11g01834 . . . Bma03g00959 Bma06g00094 . . . Cma16g01239 . . . . . . . . . . . . . . . . . . . Lsi07g01102 . . .
       

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
OG0006925 2 0 0 2 2 1 2 1 1 1 1 1 2 1 1 2 1 3 2 1 1 1 1 1 1 1 1 1 1 0 36
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
57045 PF00313 CSD 4.90E-23 CL0021 Bma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Bma03g00959 Bma_Chr03 FPKM 15.185737 14.770896 12.835063 12.525054 6.296391 7.321314 5.805344 8.430548 8.464007 7.2856