ISVpa2
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_004603 | ND | Vibrio parahaemolyticus | Vibrio parahaemolyticus RIMD |
DNA section
IS Length : 1243 bp
Ends
IR Length : 23/38
IRL : TGATCCGCACCAGCAGTTTTGGACACCGAGTTAAGTGAGTACAATCACTA
IRR : TGATCTGCTCCAGCCAGACTGGACACTTCATTAAGCGACATTTTGTTGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCAAAAATAG | CTGTCAGATC | 0 |
DNA sequence
TGATCCGCACCAGCAGTTTTGGACACCGAGTTAAGTGAGTACAATCACTAACGAGGTGAAGCATGACAAGCAAGAAAAAACGTATTATCCATTCTCCTGA
ATTTAAAGCAGAAGCCCTAAAGCTAGCAGATAAAGTGGGAGTCGCTGCGGCAGCGAGGCAACTCTCGTTACACGAATCCCAGCTCTACGGTTGGCGTAAG
GCCGCGAAGAAAGACACCAGTACCAGTCAGCGGGAAAAAGATCTAGCCGCTGAAGTCGCCAAGCTTAAAAGGCAATTGGCTGAGCAAACTGAAGAGCTAG
ATATAGTAAAAAAGGCCGCCACCTACTTCGCGAAAAATCTAAAGTAGATTGCTACGAATTTATGCTCGAACACCTGCTGTGCTTCAATGTTGTCCGTATG
GCTAAGGTGTTCGGAGTATCTCGAAGTGGGTTTTATTACTGGATTAAGCACCGCCACAAAGCCATCCAACGCGAGGCAAATCGCCAAGAGCTTGATATCA
AGGTCAAGGAGGCGTTTGACAGCAGCAAAGGCCGAGATGGTGCGAGGCGCATTCAAAAAGAACTGGCTGAGAACGGTAATAGTCATAATGTTAAAACCAT
TGCAGCCAGTATGAAGCGTCAGGATTTGACTCCGAAAGCCGCACGCAAGTTTAAGTGTACAACAGACAGCAAGCATAAAATGCCTGTTGCTCCGAACCTG
CTGGCTCAGGACTTCAACGCAGCGGCTCCGAATCAAAAGTGGGCAGGTGACATCACTTACGTTGCCACAAGCGAAGGTTGGCTGTACTTGGCGGTCATTA
TTGATCTTTACTCAAGACAAGTAGTCGGCTGGTCTATGGATACCAAAATGACTGCTACGCTGGTCTGCGATGCGCTATCAATGGCCTTGTTCCGTCGCGG
ATTCCCTGAGCAAGTTATCGTTCACAGTGATCGAGGTAGCCAGTATTGCTCAAAAGACTATCGAGACCTCATGACCGCTTATAATCTAAAGCAAAGTATG
AGTAGAAAAGGAAACTGCTGGGACAACGCTTGTGTTGAGAGCTTCTTCCATTCAATGAAAGTTGAAGCGATCCAATATGAGCCGATCATGACGCGAGACA
AGACGCGCCAAGCGATCTTCGAATACATAGAGGTTGATTATAATCGGGCGAGAAGGCACAGTGCTCTTGGGTATCTAAGCCCAGTTAATTTTGAACAACA
AAATGTCGCTTAATGAAGTGTCCAGTCTGGCTGGAGCAGATCA
ATTTAAAGCAGAAGCCCTAAAGCTAGCAGATAAAGTGGGAGTCGCTGCGGCAGCGAGGCAACTCTCGTTACACGAATCCCAGCTCTACGGTTGGCGTAAG
GCCGCGAAGAAAGACACCAGTACCAGTCAGCGGGAAAAAGATCTAGCCGCTGAAGTCGCCAAGCTTAAAAGGCAATTGGCTGAGCAAACTGAAGAGCTAG
ATATAGTAAAAAAGGCCGCCACCTACTTCGCGAAAAATCTAAAGTAGATTGCTACGAATTTATGCTCGAACACCTGCTGTGCTTCAATGTTGTCCGTATG
GCTAAGGTGTTCGGAGTATCTCGAAGTGGGTTTTATTACTGGATTAAGCACCGCCACAAAGCCATCCAACGCGAGGCAAATCGCCAAGAGCTTGATATCA
AGGTCAAGGAGGCGTTTGACAGCAGCAAAGGCCGAGATGGTGCGAGGCGCATTCAAAAAGAACTGGCTGAGAACGGTAATAGTCATAATGTTAAAACCAT
TGCAGCCAGTATGAAGCGTCAGGATTTGACTCCGAAAGCCGCACGCAAGTTTAAGTGTACAACAGACAGCAAGCATAAAATGCCTGTTGCTCCGAACCTG
CTGGCTCAGGACTTCAACGCAGCGGCTCCGAATCAAAAGTGGGCAGGTGACATCACTTACGTTGCCACAAGCGAAGGTTGGCTGTACTTGGCGGTCATTA
TTGATCTTTACTCAAGACAAGTAGTCGGCTGGTCTATGGATACCAAAATGACTGCTACGCTGGTCTGCGATGCGCTATCAATGGCCTTGTTCCGTCGCGG
ATTCCCTGAGCAAGTTATCGTTCACAGTGATCGAGGTAGCCAGTATTGCTCAAAAGACTATCGAGACCTCATGACCGCTTATAATCTAAAGCAAAGTATG
AGTAGAAAAGGAAACTGCTGGGACAACGCTTGTGTTGAGAGCTTCTTCCATTCAATGAAAGTTGAAGCGATCCAATATGAGCCGATCATGACGCGAGACA
AGACGCGCCAAGCGATCTTCGAATACATAGAGGTTGATTATAATCGGGCGAGAAGGCACAGTGCTCTTGGGTATCTAAGCCCAGTTAATTTTGAACAACA
AAATGTCGCTTAATGAAGTGTCCAGTCTGGCTGGAGCAGATCA
Recoding section
- Recoding by frameshift
- Frame
- Type
- Experimentally demonstrated
Stimulators :
- Shine-Dalgarno sequence :
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 285 bp | 94 aa | 63 | 347 | + | No |
Description : First part of the transposase
ORF sequence :
MTSKKKRIIHSPEFKAEALKLADKVGVAAAARQLSLHESQLYGWRKAAKKDTSTSQREKDLAAEVAKLKRQLAEQTEELDIVKKAATYFAKNLK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 921 bp | 306 aa | 293 | 1213 | + | No |
Description : Second part of the transposase
ORF sequence :
RARYSKKGRHLLREKSKVDCYEFMLEHLLCFNVVRMAKVFGVSRSGFYYWIKHRHKAIQREANRQELDIKVKEAFDSSKGRDGARRIQKELAENGNSHNV
KTIAASMKRQDLTPKAARKFKCTTDSKHKMPVAPNLLAQDFNAAAPNQKWAGDITYVATSEGWLYLAVIIDLYSRQVVGWSMDTKMTATLVCDALSMALF
RRGFPEQVIVHSDRGSQYCSKDYRDLMTAYNLKQSMSRKGNCWDNACVESFFHSMKVEAIQYEPIMTRDKTRQAIFEYIEVDYNRARRHSALGYLSPVNF
EQQNVA
KTIAASMKRQDLTPKAARKFKCTTDSKHKMPVAPNLLAQDFNAAAPNQKWAGDITYVATSEGWLYLAVIIDLYSRQVVGWSMDTKMTATLVCDALSMALF
RRGFPEQVIVHSDRGSQYCSKDYRDLMTAYNLKQSMSRKGNCWDNACVESFFHSMKVEAIQYEPIMTRDKTRQAIFEYIEVDYNRARRHSALGYLSPVNF
EQQNVA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1151 bp | 383 aa | 63 | 1213 | + | Yes |
Chemistry : DDE
ORF sequence :
MTSKKKRIIHSPEFKAEALKLADKVGVAAAARQLSLHESQLYGWRKAAKKDTSTSQREKDLAAEVAKLKRQLAEQTEELDIVKKGRHLLREKSKVDCYEF
MLEHLLCFNVVRMAKVFGVSRSGFYYWIKHRHKAIQREANRQELDIKVKEAFDSSKGRDGARRIQKELAENGNSHNVKTIAASMKRQDLTPKAARKFKCT
TDSKHKMPVAPNLLAQDFNAAAPNQKWAGDITYVATSEGWLYLAVIIDLYSRQVVGWSMDTKMTATLVCDALSMALFRRGFPEQVIVHSDRGSQYCSKDY
RDLMTAYNLKQSMSRKGNCWDNACVESFFHSMKVEAIQYEPIMTRDKTRQAIFEYIEVDYNRARRHSALGYLSPVNFEQQNVA
MLEHLLCFNVVRMAKVFGVSRSGFYYWIKHRHKAIQREANRQELDIKVKEAFDSSKGRDGARRIQKELAENGNSHNVKTIAASMKRQDLTPKAARKFKCT
TDSKHKMPVAPNLLAQDFNAAAPNQKWAGDITYVATSEGWLYLAVIIDLYSRQVVGWSMDTKMTATLVCDALSMALFRRGFPEQVIVHSDRGSQYCSKDY
RDLMTAYNLKQSMSRKGNCWDNACVESFFHSMKVEAIQYEPIMTRDKTRQAIFEYIEVDYNRARRHSALGYLSPVNFEQQNVA
Blast result :
Comments
ISVpa2 is 84% (ORFA) aa similar to IS1230B and 71% (ORFB) aa similar to ISPa20. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1 ] Makino,K., Oshima,K., Kurokawa,K., Yokoyama,K., Uda,T., Tagomori,K., Iijima,Y., Najima,M., Nakano,M., Yamashita,A., Kubota,Y., Kimura,S., Yasunaga,T., Honda,T., Shinagawa,H., Hattori,M. and Iida,T.(2003) Lancet 361 (9359), 743-749.