Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Vvi4g42 ATGGGCATGGGTTTCAGGCTAAACCTGAAATGGGATTTTCCAATCAGTTGTCCTACTCTCACCAATTCACCATCCAGGCTTTGCACATCTTCAGTCCAAGGTAAGGAGGCTTCCTTTGACTCAACAAGGTTTTCTTTCCCATCTGTTACTTCTGAGGACTGTGAGAGTCTCTATAAAGATCCATTCAAGCCATTCGCATGCTCGTCAGGAGCTCTACAAACCTTTGAGAATGATTACTCAGCAATGGAGGCGATGAAAATGAAAATTGGCAAATGTTCACATGGTGATTTATTCAAGATAGTCAATGCTTCTCAGGCACCCATTGGAGAGGATATATCCGCATCTGTTGCAGGTTTACAAGCAAGCAAAGCATCGCAGTTTAGTTTGTTATTGGAAAATCTTGATATTTTAGAGGAGATGTTTGCTGATTCTAACATGGTAAGGTTGGAAAGGGATATTATGGTGCAATTAGGAAGGCTTGGAGCTCTAAAACTATTCCAAATATGTCTATCCAGGACCCTCAAAACATCTACATCTTTTGATTTGTTTAGCGCTCCTACTGAGCATATTAGGGAGTGTCAAACAAATGGCACAGTGGATGATCACTTAGATAAAGTTGTTGTTCGCTCTGGGAAAAAGGAAGAAAGAAAATCAAAGAGAGAAAGAGCATTGGAAAAAGCTGACAACATATATGCTTTTCCATTGCCCTCAAAAACTATTCGTAAAGGTCCTGGCCGACCTAGTGTTTCTACCGTAAAGAGAACATTGAACTCTAGAAGGAAAAGATTGATGAATGCTAAGAACGAGGCAGAAATGTCAAAGGGAGTGAAGTTGGTTGCCAACTTGGAGAGAATCAGAGCAACTTTAGAAGAAGAAATTGGGCATGTGGCCAGCTTGAGTAACTGGGCAGAAGCTGCTGGAGTCGACAAGAAGGTGTTGCAACAACAATTGCAGTTTGGTTGGTATTGCAGAGATGAACTTTTAAGGAGTACACACTCCTTAGTCTTATACATTGCAAGAAACTACAGAGGAATGGGAGTAGCCTTTGAAGATATACTTCAGGCAGGGAATTTAGGTGTCCTGCAAGGTGCAGAACGGTTTGACCACACAAAGGGATACAGATTCTCGACCTATGTTCAGTACTGGATAAGAAAATCAATGTCAACTTTGGTGGCACGGCATGCTAGAGGGGTCAAAATTCCTTTTACATTAAACAGGGCAATAGGTCAGATACAGAAAGCTCGAAAGGCCCTTTACAAAAGCCATGGAAGATATCCAGATGATAATGAAATTGCAAAGTTCACTGGTCTATCTCTTGCTAAAATTAGATCAGCTGGAAATTGCCTAAGGGTTGTGGGTTCAACTGATCAAAGTTTCCAAGATTGTTGGGGTGCAACAATTCTGGAGTTTACACCAGATACATCAATAAAGAGCCCTGAAGAAGGTTTCATGCAGCAATGCAAGAGAAAAGACATTCACAATCTTCTGAAAGGTTTAGACCCAAGAGAGAGGCAAATTTTGGTGTTAAGATATGGTTTTGGGGAGCAACAGCGCAAGTCACTAGAAGAGATTGGGAGACGTTTCAATGTTAGCAAAGAGTGGATAAGGAAGTTAGAGAAAACAGCACTGGCAAATCTAAGGGATGAAGAAATCTGCCAAAATTTGAGACATTATGTGGATGTGTAG 1686 41.1 MGMGFRLNLKWDFPISCPTLTNSPSRLCTSSVQGKEASFDSTRFSFPSVTSEDCESLYKDPFKPFACSSGALQTFENDYSAMEAMKMKIGKCSHGDLFKIVNASQAPIGEDISASVAGLQASKASQFSLLLENLDILEEMFADSNMVRLERDIMVQLGRLGALKLFQICLSRTLKTSTSFDLFSAPTEHIRECQTNGTVDDHLDKVVVRSGKKEERKSKRERALEKADNIYAFPLPSKTIRKGPGRPSVSTVKRTLNSRRKRLMNAKNEAEMSKGVKLVANLERIRATLEEEIGHVASLSNWAEAAGVDKKVLQQQLQFGWYCRDELLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFSTYVQYWIRKSMSTLVARHARGVKIPFTLNRAIGQIQKARKALYKSHGRYPDDNEIAKFTGLSLAKIRSAGNCLRVVGSTDQSFQDCWGATILEFTPDTSIKSPEEGFMQQCKRKDIHNLLKGLDPRERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKTALANLRDEEICQNLRHYVDV* 562
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 531360 536648 - Vvi4g42 Vvi4g42 784821

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Vvi4g42 561 PRINTS Major sigma-70 factor signature 351 364 IPR000943 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PRINTS Major sigma-70 factor signature 375 383 IPR000943 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PRINTS Major sigma-70 factor signature 499 511 IPR000943 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PRINTS Major sigma-70 factor signature 520 535 IPR000943 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PRINTS Major sigma-70 factor signature 535 546 IPR000943 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 SUPERFAMILY Sigma2 domain of RNA polymerase sigma factors 259 396 IPR013325 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 SUPERFAMILY Sigma3 and sigma4 domains of RNA polymerase sigma factors 400 473 IPR013324 -
Vvi4g42 561 SUPERFAMILY Sigma3 and sigma4 domains of RNA polymerase sigma factors 463 553 IPR013324 -
Vvi4g42 561 Gene3D - 181 396 - -
Vvi4g42 561 Gene3D - 397 450 IPR036388 -
Vvi4g42 561 CDD Sigma70_r4 489 547 - -
Vvi4g42 561 TIGRFAM sigma70-ECF: RNA polymerase sigma factor, sigma-70 family 324 548 IPR014284 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PANTHER RNA POLYMERASE SIGMA FACTOR RPO 10 560 - -
Vvi4g42 561 Pfam Sigma-70, region 4 495 547 IPR007630 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 PANTHER RNA POLYMERASE SIGMA FACTOR SIGC 10 560 - -
Vvi4g42 561 Gene3D - 482 561 IPR036388 -
Vvi4g42 561 Coils Coil 253 273 - -
Vvi4g42 561 Pfam Sigma-70 region 3 407 481 IPR007624 GO:0003700|GO:0006352|GO:0006355
Vvi4g42 561 Pfam Sigma-70 region 2 327 396 IPR007627 GO:0003700|GO:0006352|GO:0006355
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Vvi4g42 K03093 sigI; RNA polymerase sigma factor - vvi:100252651 1108.2
       

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
Vvi4g42 . . . . . . . . . . . . . Car12g00215 Sed01g1245 Cpe07g00198 . Bhi04g00884 Tan02g2529 . . Hepe10g0389 . Lcy13g1443 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cla08g01198 Cam08g1660 Cec08g1237 Cco08g1356 Clacu08g1357 . Cre08g1144 . Csa02g02242 . .
       

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
OG0007971 0 2 1 0 0 1 2 1 1 1 1 1 2 1 1 0 1 2 2 1 1 1 1 1 1 0 1 3 5 1 36