Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma01g01104 ATGGTTTCAGAACAAGAGCTTTCTGAAGCTTTACAATGTCTCTTACGCGATTCCGCTTCTCCTTCAAACCCTAACCCTTTTTCTTCCCTCAACGCCGTTGTTCTTGAGTTGCAGTCCAAGCTTGGCCTCGATTTGTCTCATAAGGTCGATTTCATCCATGCTCAGATTCAGCTAATCCTTCGCTCTCATCCTCAACAGCCTCAAATTCATCAGAATCATCATAATCAACAGCAGCAACCACCGCCTTCTTCGCAGAAAGACCTTCTCCCACCCCATCAAAGCCCTAATTTCCCATCTGCTCCTTCCCCCACTTCCTCTGCTTTTCATACTTTCACTGCTCAGCCTCCTCCGGCTAAACCGGAAACCGCCGCCGCTCCCTCCACTGCTGTCGGTTCTGACCCGCCGAAGGAGAGCACTCAGACCAAGACTAAGAGAAGAGGAGGCCCGGGCGGGCTAAACAAGCTTTGTGGCGTTTCTCCTGAACTTCAGACAATTGTTGGGCAACCAGAATTGCCAAGAACTGAGATAGTGAAACAGCTATGGGCATACATCAGAAAAAATAACCTACAGGATCCGAGTAACAAAAGAAAAATAATATGCAACGATGAGTTGCGGTTGGTATTCGAAACAGACTGCACTGACATGTTCAAAATGAATAAGTTGCTAGCCAAGCACATCATTTCTCTTGAACCTACAAAACCGTCAAGTTCGAAGAAGGCACGAGTGGAGAATGAACCTGCAATTGCTGTAAAAGCTGCAGAACCTAGTGTTTGTCCTTCTGTGATTATATCTGAAGCTCTTGCAAGTTTTTTTGGTGTTGATGGAAGGGAGATGCTTCAATCAGAGGTTCTGAGACGCATATGGGAATACATAAGAGCCAATCATCTTGAGGACCCACTAAACCCAATGGCGGTGTTGTGTGATGCAAAACTCCAAGAACTGTTCGGCTGTGAAAGCATTTCTGCACTGGGAATCCCAGAAGTTTTAGGCCGCCACCACATATTTAGGAGATCATGA 1017 46.31 MVSEQELSEALQCLLRDSASPSNPNPFSSLNAVVLELQSKLGLDLSHKVDFIHAQIQLILRSHPQQPQIHQNHHNQQQQPPPSSQKDLLPPHQSPNFPSAPSPTSSAFHTFTAQPPPAKPETAAAPSTAVGSDPPKESTQTKTKRRGGPGGLNKLCGVSPELQTIVGQPELPRTEIVKQLWAYIRKNNLQDPSNKRKIICNDELRLVFETDCTDMFKMNKLLAKHIISLEPTKPSSSKKARVENEPAIAVKAAEPSVCPSVIISEALASFFGVDGREMLQSEVLRRIWEYIRANHLEDPLNPMAVLCDAKLQELFGCESISALGIPEVLGRHHIFRRS 338
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 8087994 8091018 - CmaCh01G011040.1 Cma01g01104 286797

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma01g01104 338 SUPERFAMILY SWIB/MDM2 domain 259 333 IPR036885 -
Cma01g01104 338 PANTHER - 1 334 - -
Cma01g01104 338 MobiDBLite consensus disorder prediction 84 98 - -
Cma01g01104 338 MobiDBLite consensus disorder prediction 65 156 - -
Cma01g01104 338 MobiDBLite consensus disorder prediction 65 83 - -
Cma01g01104 338 CDD SWIB-MDM2_like 261 332 - -
Cma01g01104 338 Pfam SWIB/MDM2 domain 156 226 IPR003121 -
Cma01g01104 338 Pfam SWIB/MDM2 domain 262 332 IPR003121 -
Cma01g01104 338 ProSiteProfiles SWIB/MDM2 domain profile. 151 228 IPR003121 -
Cma01g01104 338 SMART swib_2 152 231 IPR019835 -
Cma01g01104 338 SMART swib_2 257 338 IPR019835 -
Cma01g01104 338 SUPERFAMILY SWIB/MDM2 domain 145 231 IPR036885 -
Cma01g01104 338 CDD SWIB-MDM2_like 156 226 - -
Cma01g01104 338 ProSiteProfiles SWIB/MDM2 domain profile. 256 335 IPR003121 -
Cma01g01104 338 Gene3D SWIB/MDM2 domain 256 337 IPR036885 -
Cma01g01104 338 Gene3D SWIB/MDM2 domain 147 237 IPR036885 -
Cma01g01104 338 PANTHER SWI/SNF-RELATED MATRIX-ASSOCIATED ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY D 1 334 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma01g01104 K15223 UAF30, SPP27; upstream activation factor subunit UAF30 - csv:101217066 540.421
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma01g01104 Cma-Chr1:8087994 Cma02g00610 Cma-Chr2:3661137 4.30E-46 dispersed
Cma01g01104 Cma-Chr1:8087994 Cma20g01124 Cma-Chr20:8878787 2.29E-51 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
Vvi19g593 Blo03g00535 Blo03g01462 Bda07g00384 Bda09g00413 . Bpe08g01108 . . . . Cma01g01104 . Car01g00976 . . . Cpe02g00797 Bhi09g01716 . . . . . . . . . . . . . Cone6ag0039 Cone9ag0041 . . Lsi02g01868 Csa07g00991 . . . . . . Bpe11g00562 . Bma07g01280 Bma14g00318 . Cmo01g01150 . . . . . . . . . . . . . . Cla09g02037 Cam09g2126 . . . . . . . Chy01g01071 Cme01g00979
       

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
OG0004875 2 3 2 2 2 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 5 1 1 41
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
34314 PF02201 SWIB 2.20E-18 No_clan Cma TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma01g01104 Cma_Chr01 FPKM 29.50934 33.25486 26.950159 27.611811 33.743725 30.368679 33.707119 35.669819 35.78804 34.882191