Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma16g00070 ATGGTGTTAGCTATGCTACTTGGTATGGGAGTTGTGACCGTTTCAAGCTCGGCAGCACGAACTCCTTTTCGGCTAGGTGGAAAATTTTCCAATAACATTTCTGCATCGAAAAGACCATCGATTGTCGCTTTTAAAGTAGATAAGCACACGAACGCTACTTTGGTCTCACCTCACGAACAAGTAACCCTGCCTGTGGAGAGTAATAACAGAAACCAGAAAAGAACAGGCAAAACTAGCAAATCTTTAAAGAGAGTTAAAGCTGTCTTGATCGATGAAGCTACACCCTGTACTTCGGATGTGGATTACAATGAGGCTGCTGCTAAACTTGAAAACATTTTCAAGCTTAGCCCTGTGACAGAGGATACTGATATGGAAAATGAAGATGGCAGACCGAAAAGAGTACAACAAAGGAGGAAAAAGTTAGGCAAGAGACCATGTGATGGTGTAGTCAGGAACCAGACTAAGAGGATTAAGCGACTCGATCTCGACAGGAGGATAGCATTGAAAAGTAACAAGGAAGGAAAATCAGCTCCTTCATTAAGTATACAAAAAGATACCAAAAGTGAAGCTGATGAGATTGATGATCTTGTAAGAAACTACTCTGCTTCTACTGATTTGGTTAGTTTAGACTGGAAAAAGATGAAGATTCCTCCAGTTCTTCCTTCATCAGAGCATACCCGTTTGTTCAAGTTGGTTCAACCAATGAAGGCACTTATTCAAGCACAAGAAGAACTGCAGAAAGGGTTGGGAAGAGAACCAACTGAAGGAGAATTGGCCAATGCGACAAATATGAATGTAATTCAAGTAAGGAGACAGTTGGAGGTTGGTCGTGCTGCCCGAAACAAACTCATCAAGCATAATCTCCGCCTTGTATTGTTTGTGATCAACAAATACTTTGAAGATTTTGCAAGTGGCCCAAAATTTCAAGACCTTTGTCAAGCAGGAGTCAAGGGACTCATTACAGCGATTGATCGCTTTGAGCCTAAGAGAAGATTCCGCCTATCAACTTATGCTTTATTTTGGATAAGGCATGCTATTATTCGGTCAATGACTCTCTCAAGCTTCACACGTGTCTCATTTGGACTCGACTCGGTAAGAGTTGAAATTCAAAGAGCTAAACTTGAGTTATTATGTGAGCTTCATAGATTGCCAACAGAGGAAGAGGTAATCGCAAAAGTTGGCATCTCACCTGAGAGGTACCTAGAAGTAATGAGGGCTACAAAACCAGTTTACTCTCTCCATTCTAGGCACTCAACTACATCAGAAGAGTTTATCAGTGGGATCGCTGATGTAGAAGGTACTGGAGGCGACAACCGGAGGCAATCAGCTCTTCTGAGGCTTGCTCTTGACGATGTGCTTGATTCTCTTAAGCCGAAAGAGAGCTTGGTGATCCGACAAAGATACGGTCTTGATGGCAAAGGAAACCGAACATTAGGTGAGATAGCCGGAAATCTAAATATTTCAAGGGAAATGGTTCGAAAGCATGAAGTGAAAGCTCTCATGAAGCTCAAGCATCCTGCAAGAGTGGATTACCTTCGTCGGTATTTAATCTGA 1554 42.15 MVLAMLLGMGVVTVSSSAARTPFRLGGKFSNNISASKRPSIVAFKVDKHTNATLVSPHEQVTLPVESNNRNQKRTGKTSKSLKRVKAVLIDEATPCTSDVDYNEAAAKLENIFKLSPVTEDTDMENEDGRPKRVQQRRKKLGKRPCDGVVRNQTKRIKRLDLDRRIALKSNKEGKSAPSLSIQKDTKSEADEIDDLVRNYSASTDLVSLDWKKMKIPPVLPSSEHTRLFKLVQPMKALIQAQEELQKGLGREPTEGELANATNMNVIQVRRQLEVGRAARNKLIKHNLRLVLFVINKYFEDFASGPKFQDLCQAGVKGLITAIDRFEPKRRFRLSTYALFWIRHAIIRSMTLSSFTRVSFGLDSVRVEIQRAKLELLCELHRLPTEEEVIAKVGISPERYLEVMRATKPVYSLHSRHSTTSEEFISGIADVEGTGGDNRRQSALLRLALDDVLDSLKPKESLVIRQRYGLDGKGNRTLGEIAGNLNISREMVRKHEVKALMKLKHPARVDYLRRYLI 517
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
16 297779 301654 - CmaCh16G000700.1 Cma16g00070 310668

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma16g00070 517 Pfam Sigma-70 region 3 367 433 IPR007624 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 Pfam Sigma-70 region 3 238 278 IPR007624 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 TIGRFAM sigma70-ECF: RNA polymerase sigma factor, sigma-70 family 279 505 IPR014284 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 SUPERFAMILY Sigma2 domain of RNA polymerase sigma factors 201 350 IPR013325 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 Gene3D - 274 351 - -
Cma16g00070 517 Gene3D - 356 408 IPR036388 -
Cma16g00070 517 Gene3D - 230 273 IPR036388 -
Cma16g00070 517 SUPERFAMILY Sigma3 and sigma4 domains of RNA polymerase sigma factors 441 516 IPR013324 -
Cma16g00070 517 MobiDBLite consensus disorder prediction 120 134 - -
Cma16g00070 517 Gene3D - 439 517 IPR036388 -
Cma16g00070 517 Pfam Sigma-70, region 4 452 505 IPR007630 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PANTHER RNA POLYMERASE SIGMA FACTOR RPO 10 517 - -
Cma16g00070 517 MobiDBLite consensus disorder prediction 168 188 - -
Cma16g00070 517 Pfam Sigma-70 region 2 283 349 IPR007627 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PRINTS Major sigma-70 factor signature 310 323 IPR000943 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PRINTS Major sigma-70 factor signature 334 342 IPR000943 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PRINTS Major sigma-70 factor signature 456 468 IPR000943 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PRINTS Major sigma-70 factor signature 477 492 IPR000943 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 PRINTS Major sigma-70 factor signature 492 503 IPR000943 GO:0003700|GO:0006352|GO:0006355
Cma16g00070 517 SUPERFAMILY Sigma3 and sigma4 domains of RNA polymerase sigma factors 364 422 IPR013324 -
Cma16g00070 517 MobiDBLite consensus disorder prediction 120 143 - -
Cma16g00070 517 PANTHER RNA POLYMERASE SIGMA FACTOR SIGE, CHLOROPLASTIC/MITOCHONDRIAL 10 517 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma16g00070 K03093 sigI; RNA polymerase sigma factor - csv:101208584 868.996
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma16g00070 Cma18g01301 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma16g00070 Cma-Chr16:297779 Cma08g00989 Cma-Chr8:6172878 1.65E-24 dispersed
Cma16g00070 Cma-Chr16:297779 Cma18g01301 Cma-Chr18:10014605 0 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
Vvi16g868 Blo06g01076 . . . . . . . Cmo16g00073 Cmo18g01330 . . . . Sed07g0818 . Cpe14g00055 Bhi01g01453 Tan01g0146 Cmetu06g0694 . Hepe07g0087 . . . . . . . . . . . Cone14ag0030 Cone15ag0032 . . . . . . . Bda15g00776 . Bpe12g00373 . . . . . Cma16g00070 Cma18g01301 Car16g00061 Car18g01217 Cpe09g00041 . . . . . . . . Cla05g00949 Cam05g1040 Cec05g1045 Cco05g1039 Clacu05g1031 Cmu05g0981 Cre05g1060 . Csa03g02199 Chy06g01254 .
       

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
OG0005753 1 2 1 0 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 3 2 1 38
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma16g00070 Cma_Chr16 FPKM 6.622028 8.129871 20.856554 22.60619 18.44467 17.105677 17.702534 22.00712 21.309792 20.13102