Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma13g00394 ATGACAAGAAAGAAGGTGAAGCTGACATACATAACAAATGATGCAGCAAGAAAAGCCACATTCAAGAAGAGGAAGAAGGGCTTAATGAAGAAGCTCACCGAGCTCACCACACTCTGTGGGATCGAGGCGTGCGCCATAATTTTCAGTCCCTTCAATTCTCAACCCGATCTCTGGCCCTCTGTTGTTGGGCTCGAGAGGGTTCTTGCTAAGTTCAAAAGCCTATCGGAGATGGAGCAATGCAATAAGATGGTGAATCAAGAGACCTTCCTCCGTGACCGCATAGCTAAAGCGACTGACCAACTCAAGAAGTTGCAAAGAGAGAAACGCGAGAAGGAGATCACAAGACTCATGTTTGAAAGCCTCGTGGCTGGAGCGACTCCACCACGAGATCTCAATATCATTGATTTGTATGATCTTGTGTGGTTGGTTGATGAGACAATGACTGATGTTTGTAAGAGGATTGAGTTGCTTACGACAACTATGACTGAACCGCAGGTCGTGTCGGCAGTCGAGCCGTCGTGGTTCATGGAGATGATGAGTCATGAAGCCTATGATGATCAAATGGGATTCAAGATTTGGGATGATGTGATTCAACTTCCAAATGATGATAACCATGCCCCTTCAATTCCTAACCTGACCTCTGGCCCTCCGCCGTGGGGCTCCAGAGGGTTGTCTCCAAGTTCAAAAGCCTGTCGGAGATGGAGCAATGCAATAAGATGGTCAACCAAGAGGCATTCCTTCACGACCGCATCGCCAAAGCCGCCGAGCAACTCGAGAAGTAGTAGACGGAGAACCGTGAGAAGGAGATTTATAACTGTGAGATTACTCAAAGAAGACCTTGATGAATGCTTTTATTCAAGAAAATCAGTCAATTCACAGCTAGCAAAGGCAATGGAAGGGTGCCATATGCAAGCTGAACAGAGAAAATGA 930 46.56 MTRKKVKLTYITNDAARKATFKKRKKGLMKKLTELTTLCGIEACAIIFSPFNSQPDLWPSVVGLERVLAKFKSLSEMEQCNKMVNQETFLRDRIAKATDQLKKLQREKREKEITRLMFESLVAGATPPRDLNIIDLYDLVWLVDETMTDVCKRIELLTTTMTEPQVVSAVEPSWFMEMMSHEAYDDQMGFKIWDDVIQLPNDDNHAPSIPNLTSGPPPWGSRGLSPSSKACRRWSNAIRWSTKRHSFTTASPKPPSNSRSSRRRTVRRRFITVRLLKEDLDECFYSRKSVNSQLAKAMEGCHMQAEQRK 309
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
13 4498887 4502691 - CmaCh13G003940.1 Cma13g00394 306221

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma13g00394 309 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 10 50 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 Gene3D - 13 115 IPR036879 GO:0003677|GO:0046983
Cma13g00394 309 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL80 1 174 - -
Cma13g00394 309 ProSiteProfiles MADS-box domain profile. 1 49 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 CDD MADS_SRF_like 2 85 IPR033897 GO:0000981|GO:0000987|GO:0045944
Cma13g00394 309 Coils Coil 87 114 - -
Cma13g00394 309 MobiDBLite consensus disorder prediction 204 228 - -
Cma13g00394 309 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Cma13g00394 309 SUPERFAMILY SRF-like 2 95 IPR036879 GO:0003677|GO:0046983
Cma13g00394 309 PANTHER SERUM RESPONSE FACTOR HOMOLOG 1 174 - -
Cma13g00394 309 MobiDBLite consensus disorder prediction 245 264 - -
Cma13g00394 309 MobiDBLite consensus disorder prediction 245 259 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma13g00394 - - - csv:101219796 293.123
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma10g01184 Cma-Chr10:8702422 Cma13g00394 Cma-Chr13:4498887 3.14E-69 dispersed
Cma13g00394 Cma-Chr13:4498887 Cma02g00634 Cma-Chr2:3828522 6.86E-12 dispersed
Cma13g00394 Cma-Chr13:4498887 Cma18g01139 Cma-Chr18:9209632 9.25E-10 transposed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cma04g00425 . 4 160 Type I MADS-box Gene Family AT2G24840 53.8 6.5e-38 155.2
Cma04g00425 . 1 165 Type I MADS-box Gene Family AT5G60440 61.3 3.5e-48 189.5
Cma16g00680 . 1 230 Type I MADS-box Gene Family AT1G77950 51.4 1.2e-54 210.7
Cma10g01184 . 1 157 Type I MADS-box Gene Family AT5G48670 65.6 8.6e-53 204.9
Cma13g00394 . 1 163 Type I MADS-box Gene Family AT5G48670 55.2 2.5e-44 176.8
Cma04g00425 . 4 160 Type I MADS-box Gene Family AT2G24840 53.8 6.5e-38 155.2
Cma04g00425 . 1 165 Type I MADS-box Gene Family AT5G60440 61.3 3.5e-48 189.5
Cma16g00680 . 1 230 Type I MADS-box Gene Family AT1G77950 51.4 1.2e-54 210.7
Cma10g01184 . 1 157 Type I MADS-box Gene Family AT5G48670 65.6 8.6e-53 204.9
Cma13g00394 . 1 163 Type I MADS-box Gene Family AT5G48670 55.2 2.5e-44 176.8
Cma04g00425 . 1 165 Type I MADS-box Gene Family AT5G60440 61.3 3.5e-48 189.5
Cma10g01184 . 1 157 Type I MADS-box Gene Family AT5G48670 65.6 8.6e-53 204.9
Cma13g00394 . 1 163 Type I MADS-box Gene Family AT5G48670 55.2 2.5e-44 176.8
Cma04g00425 . 4 160 Type I MADS-box Gene Family AT2G24840 53.8 6.5e-38 155.2
Cma16g00680 . 1 230 Type I MADS-box Gene Family AT1G77950 51.4 1.2e-54 210.7
Cma04g00425 . 1 165 Type I MADS-box Gene Family AT5G60440 61.3 3.5e-48 189.5
Cma10g01184 . 1 157 Type I MADS-box Gene Family AT5G48670 65.6 8.6e-53 204.9
Cma13g00394 . 1 163 Type I MADS-box Gene Family AT5G48670 55.2 2.5e-44 176.8
Cma04g00425 . 4 160 Type I MADS-box Gene Family AT2G24840 53.8 6.5e-38 155.2
Cma16g00680 . 1 230 Type I MADS-box Gene Family AT1G77950 51.4 1.2e-54 210.7
       

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
OG0001414 5 4 2 4 3 2 4 2 2 2 2 2 2 2 3 2 2 3 4 2 2 3 2 2 2 2 2 2 2 1 74
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
36083 PF00319 SRF-TF 2.30E-17 No_clan Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma13g00394 Cma_Chr13 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0