ISVch4
- Family IS3
- Group IS3
Isoform Synonym(s) IS1359
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_002505 | ND | Vibrio cholerae | Vibrio cholerae Amazonia 3509 Vibrio cholerae O1 biovar eltor N16961 |
DNA section
IS Length : 1258 bp
Ends
IR Length : 24/35
IRL : TGTAGTGGCATAGTGAATTTGGTCACTTAGTTAGAGGTGATATCATCACC
IRR : TGTAGTGGTCAACTAAAATTGGCCACGGTTTTAGAGTTTTCCCAATATAA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TAAGCTACAAAAACCCA | AAC | TTTGATTTAGGTATGCGTC | 3 |
| CATCTACTAT | ATT | GAGCAGTTAA | 3 |
DNA sequence
TGTAGTGGCATAGTGAATTTGGTCACTTAGTTAGAGGTGATATCATCACCTCATAAGTTAACAGGTGACATTATGACAAAACGTACAAGACGACTATTTA
GCGCAGAATTTAAGTTAGAAGCAGCGCAGCTAGTCTTAGACCAAAATTACTCAGTGACGGAAGCAGCCCAAGCCATGAATGTGGGCAAGTCCACGATGGA
TAAATGGGTTCGCCAGCTTAGAGAAGAACGCCAAGGGAAAACACCTAAAGCTTCACCTATGACCCCTGAGCAAATAGAAATTCGGGAATTGAAAAAGAAG
CTGGCTCGCCTTGAAGAGCATAATGAAATACTAAAAAAAGCCACGGCTCTCTTGATGTCGGACTCACTGAACAATTCTTGATAATCAAGAAACTCAAGCA
GAGCCACAGCGTAAAAATATTATGCGAAGTCTTCAATGTTCATCGAAGTAGTTATCACTATTGGCTTAAACGCCCAGCGTTAATTAATGCGGAAACAATA
AAACTGCGCAGCTTGATTAGCGAGGCTCACGCCGCAAGCAATGGCTCTGCGGGAGCGAGAACCATTGCAGATATAGTCACAAATCAGGGTGTAAAGCTGA
GCCGATACCGAGCAACAAAGCTAATGAGAACTCTTGGTTTAGTAAGCTGCCAAGAACCAAAGCATCGTTACAGAAAGGCTTCACAAGAACATATTGACGT
TCCAAATCACTTAAGTCGTCAATTTGCTGTTACGGCTCCAAATGAAGTCTGGGCTGGCGATGTTACGTATATTTGGACTGGTAATCGGTGGATGTATTTA
GCGGTCGTTATCGATCTTTTTGCCCGCAAAGTGATCGGTTGGTCAATGTCTTTGTCGCCTGATAGTCGGTTGACAGGTAAAGCGCTGTCTATGGCCTATG
AATCTCGCGGAAAGCCAAAAGGTGTCATGTTCCATAGCGATCAAGGCAGTCATTATACTAGCCGTAAATACCGTCAATTACTGTGGCGCTTTCAAATAAA
ACAGAGTTTATCTCGCCGAGGAAACTGTTGGGATAATGCGCCGATAGAGCGCTTCTTTAGAAGTCTGAAGACGGAATGGGTGCCAACTGTGGGTTATCGT
AGCTTCGCTGAGGCTCAACAAGAGATCACCCGCTACATTATCGGATATTACTGCCAACTCAGGCCACATCAGTATAACGGTGGTCTAACTCCCAATGAAT
CAGAACGATTATATTGGGAAAACTCTAAAACCGTGGCCAATTTTAGTTGACCACTACA
GCGCAGAATTTAAGTTAGAAGCAGCGCAGCTAGTCTTAGACCAAAATTACTCAGTGACGGAAGCAGCCCAAGCCATGAATGTGGGCAAGTCCACGATGGA
TAAATGGGTTCGCCAGCTTAGAGAAGAACGCCAAGGGAAAACACCTAAAGCTTCACCTATGACCCCTGAGCAAATAGAAATTCGGGAATTGAAAAAGAAG
CTGGCTCGCCTTGAAGAGCATAATGAAATACTAAAAAAAGCCACGGCTCTCTTGATGTCGGACTCACTGAACAATTCTTGATAATCAAGAAACTCAAGCA
GAGCCACAGCGTAAAAATATTATGCGAAGTCTTCAATGTTCATCGAAGTAGTTATCACTATTGGCTTAAACGCCCAGCGTTAATTAATGCGGAAACAATA
AAACTGCGCAGCTTGATTAGCGAGGCTCACGCCGCAAGCAATGGCTCTGCGGGAGCGAGAACCATTGCAGATATAGTCACAAATCAGGGTGTAAAGCTGA
GCCGATACCGAGCAACAAAGCTAATGAGAACTCTTGGTTTAGTAAGCTGCCAAGAACCAAAGCATCGTTACAGAAAGGCTTCACAAGAACATATTGACGT
TCCAAATCACTTAAGTCGTCAATTTGCTGTTACGGCTCCAAATGAAGTCTGGGCTGGCGATGTTACGTATATTTGGACTGGTAATCGGTGGATGTATTTA
GCGGTCGTTATCGATCTTTTTGCCCGCAAAGTGATCGGTTGGTCAATGTCTTTGTCGCCTGATAGTCGGTTGACAGGTAAAGCGCTGTCTATGGCCTATG
AATCTCGCGGAAAGCCAAAAGGTGTCATGTTCCATAGCGATCAAGGCAGTCATTATACTAGCCGTAAATACCGTCAATTACTGTGGCGCTTTCAAATAAA
ACAGAGTTTATCTCGCCGAGGAAACTGTTGGGATAATGCGCCGATAGAGCGCTTCTTTAGAAGTCTGAAGACGGAATGGGTGCCAACTGTGGGTTATCGT
AGCTTCGCTGAGGCTCAACAAGAGATCACCCGCTACATTATCGGATATTACTGCCAACTCAGGCCACATCAGTATAACGGTGGTCTAACTCCCAATGAAT
CAGAACGATTATATTGGGAAAACTCTAAAACCGTGGCCAATTTTAGTTGACCACTACA
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 | |
|---|---|---|---|---|---|
| 345 bp | 114 aa | 37 | 381 | + | No |
Description : First part of the transposase
ORF sequence :
MISSPHKLTGDIMTKRTRRLFSAEFKLEAAQLVLDQNYSVTEAAQAMNVGKSTMDKWVRQLREERQGKTPKASPMTPEQIEIRELKKKLARLEEHNEILK
KATALLMSDSLNNS
KATALLMSDSLNNS
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 924 bp | 307 aa | 327 | 1250 | + | No |
Description : Second part of the transposase
ORF sequence :
NTKKSHGSLDVGLTEQFLIIKKLKQSHSVKILCEVFNVHRSSYHYWLKRPALINAETIKLRSLISEAHAASNGSAGARTIADIVTNQGVKLSRYRATKLM
RTLGLVSCQEPKHRYRKASQEHIDVPNHLSRQFAVTAPNEVWAGDVTYIWTGNRWMYLAVVIDLFARKVIGWSMSLSPDSRLTGKALSMAYESRGKPKGV
MFHSDQGSHYTSRKYRQLLWRFQIKQSLSRRGNCWDNAPIERFFRSLKTEWVPTVGYRSFAEAQQEITRYIIGYYCQLRPHQYNGGLTPNESERLYWENS
KTVANFS
RTLGLVSCQEPKHRYRKASQEHIDVPNHLSRQFAVTAPNEVWAGDVTYIWTGNRWMYLAVVIDLFARKVIGWSMSLSPDSRLTGKALSMAYESRGKPKGV
MFHSDQGSHYTSRKYRQLLWRFQIKQSLSRRGNCWDNAPIERFFRSLKTEWVPTVGYRSFAEAQQEITRYIIGYYCQLRPHQYNGGLTPNESERLYWENS
KTVANFS
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1214 bp | 404 aa | 37 | 1250 | + | Yes |
Chemistry : DDE
ORF sequence :
MISSPHKLTGDIMTKRTRRLFSAEFKLEAAQLVLDQNYSVTEAAQAMNVGKSTMDKWVRQLREERQGKTPKASPMTPEQIEIRELKKKLARLEEHNEILK
KSHGSLDVGLTEQFLIIKKLKQSHSVKILCEVFNVHRSSYHYWLKRPALINAETIKLRSLISEAHAASNGSAGARTIADIVTNQGVKLSRYRATKLMRTL
GLVSCQEPKHRYRKASQEHIDVPNHLSRQFAVTAPNEVWAGDVTYIWTGNRWMYLAVVIDLFARKVIGWSMSLSPDSRLTGKALSMAYESRGKPKGVMFH
SDQGSHYTSRKYRQLLWRFQIKQSLSRRGNCWDNAPIERFFRSLKTEWVPTVGYRSFAEAQQEITRYIIGYYCQLRPHQYNGGLTPNESERLYWENSKTV
ANFS
KSHGSLDVGLTEQFLIIKKLKQSHSVKILCEVFNVHRSSYHYWLKRPALINAETIKLRSLISEAHAASNGSAGARTIADIVTNQGVKLSRYRATKLMRTL
GLVSCQEPKHRYRKASQEHIDVPNHLSRQFAVTAPNEVWAGDVTYIWTGNRWMYLAVVIDLFARKVIGWSMSLSPDSRLTGKALSMAYESRGKPKGVMFH
SDQGSHYTSRKYRQLLWRFQIKQSLSRRGNCWDNAPIERFFRSLKTEWVPTVGYRSFAEAQQEITRYIIGYYCQLRPHQYNGGLTPNESERLYWENSKTV
ANFS
Blast result :
Comments
ISVch4 is 91% (ORFA) and 78% (ORFB) aa similar to IS911. The third ORF is a putative ORFAB reconstructed in silico by possible -1 frameshift.
ISVch4 is part of Genbank entry EU272902 to be released.
ISVch4 is part of Genbank entry EU272902 to be released.
References