Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma16g00680 ATGGGGCGAGTGAAGCTACAGATCAAAAGAATCGAAAACAACACCAATCGCCAGGTCACCTATTCCAAACGCCGCAATGGCCTCATCAAAAAGGCATACGAACTCTCTGTTCTTTGCGATATCGATATCGCACTTATCATGTTCTCTCCTTCTAGCCGCCTCAGCCACTTCTCCGGCCGCCGCAGAATCGAAGATGTTCTTGCTCGTTACATAAATTTGCCTGATCATGACAGAGGAAGTGTTGTTCAGAATAAAGAGTTTTTACTCGGAACACTGAATAATCTGAAGACAGAGAACGATATTGCACTTCAACTTGCCAATCCTACATCAAGCAATTCCAATGTCGAGGAGCTTCAACAAGAGGTTGCTACATTGAGACATGAGCTTCAACTTGCTGAACAGCAGCTTAGGTTATTCGAACCAGATCCTTTTTCGTTTACATCGAATGGTGAAATAGAGTCATGTGAGAAGAATCTGCTTGACACATTGGCACGAATAGCTCAGAGGAAGAAAGATGTATTGAATAGTCATTTATCTCCATATGATCCACCGAATGGTATTCAGCTATATTTGGATTCACAAGATGGAATAGCGTCTTCGTTTGAAAACGATGTAGCGAATTGGCTACCGGAAAATGGGGGGCAAAACCAGAACCAAATTTGTGTGGCAGCTGAGTCGTCTTCGATTCCACAAAGTGGTCAATATCCTGGTACGGTTTATGATCAAGTAACGCAAGCGGGCAACATGAATGTCGGGTCATGCAACATTGGTGGGTGTGACATGGGCAACCCGAACGACGATGGCTATTCACCATGGCATCACAACTACACGACGTCGCAGCTCCTCTCCTCATTCATACCACAAGCTTCATTTGAAACTCTCAAGCATGAGATTGGAGGGCCTTGCATGAACACAATGATGTCGCAGCAACAAGTTGATAGCATTTCTAATGGGAATCAAATGCCTCCAAGTGATGAAAGTGCTAATTATGATAATGGCAAGTTGCCTCAACTCAATGCGGATTGA 1026 44.05 MGRVKLQIKRIENNTNRQVTYSKRRNGLIKKAYELSVLCDIDIALIMFSPSSRLSHFSGRRRIEDVLARYINLPDHDRGSVVQNKEFLLGTLNNLKTENDIALQLANPTSSNSNVEELQQEVATLRHELQLAEQQLRLFEPDPFSFTSNGEIESCEKNLLDTLARIAQRKKDVLNSHLSPYDPPNGIQLYLDSQDGIASSFENDVANWLPENGGQNQNQICVAAESSSIPQSGQYPGTVYDQVTQAGNMNVGSCNIGGCDMGNPNDDGYSPWHHNYTTSQLLSSFIPQASFETLKHEIGGPCMNTMMSQQQVDSISNGNQMPPSDESANYDNGKLPQLNAD 341
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
16 3539095 3541078 + CmaCh16G006800.1 Cma16g00680 311278

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma16g00680 341 Gene3D - 13 90 IPR036879 GO:0003677|GO:0046983
Cma16g00680 341 SMART madsneu2 1 60 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 PANTHER SERUM RESPONSE FACTOR HOMOLOG 1 307 - -
Cma16g00680 341 CDD MADS_MEF2_like 2 75 IPR033896 GO:0000977|GO:0045944
Cma16g00680 341 ProSitePatterns MADS-box domain signature. 3 57 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 SUPERFAMILY SRF-like 2 81 IPR036879 GO:0003677|GO:0046983
Cma16g00680 341 MobiDBLite consensus disorder prediction 312 341 - -
Cma16g00680 341 PANTHER AGAMOUS-LIKE MADS-BOX PROTEIN AGL104 1 307 - -
Cma16g00680 341 PRINTS MADS domain signature 38 59 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 PRINTS MADS domain signature 23 38 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 PRINTS MADS domain signature 3 23 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 Coils Coil 115 135 - -
Cma16g00680 341 Pfam SRF-type transcription factor (DNA-binding and dimerisation domain) 10 57 IPR002100 GO:0003677|GO:0046983
Cma16g00680 341 ProSiteProfiles MADS-box domain profile. 1 61 IPR002100 GO:0003677|GO:0046983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma16g00680 - - - csv:101222576 560.836
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma01g00792 Cma-Chr1:4274400 Cma16g00680 Cma-Chr16:3539095 2.34E-22 dispersed
Cma16g00680 Cma-Chr16:3539095 Cma14g01148 Cma-Chr14:9009460 1.40E-22 dispersed
Cma16g00680 Cma-Chr16:3539095 Cma01g00837 Cma-Chr1:4573034 4.41E-23 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
OG0008266 1 1 2 1 1 1 1 1 1 1 1 1 1 2 2 1 1 3 1 1 1 1 1 1 1 0 1 1 1 2 35
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
36566 PF00319 SRF-TF 4.00E-24 No_clan Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma16g00680 Cma_Chr16 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0