ISSba5
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_009052 | ND | Shewanella baltica | Shewanella baltica OS233 Shewanella baltica OS155 Shewanella baltica OS195 Shewanella baltica OS185 |
DNA section
IS Length : 1260 bp
Ends
IR Length : 25/36
IRL : TGTAGTGGCACACTAATTTTGGCCACCTAAATAGAGGTGATATTATTACC
IRR : TGTAGTGGTCAAGTAAAATTGGCCACGGTTTTAGAGTCATTCCAATATAA
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CAGTTAAGGT | TAATGTTGTC | 0 | |
GGAGTCTGTT | CTTCGGTCAC | 0 | |
TTTGACTATA | GTA | TGAGTTACGA | 3 |
CCCACCCCAT | AATGCTCTGT | 0 | |
TGTTAGATTG | CTGAGAATTT | 0 | |
AAAATGACTG | TCGCTAGAAA | 0 | |
ATGCTTGCTG | AAT | GTCGTTTTTG | 3 |
TTATTTGGCA | ATC | TACCAGACAG | 3 |
TTTTAGTTAA | AAG | ATGTAGCGAT | 3 |
DNA sequence
TGTAGTGGCACACTAATTTTGGCCACCTAAATAGAGGTGATATTATTACCTCGTAGATGACTTTAGGTGAACACATGAGATCGACAACCAGAAAAACATT
TAGTGCTGAATTCAAACTTGAAGCAGCCCAATTAGTCCTCGATAAAAACCATAGCATCATCGAAGCTGCAAAGGCGATGAACGTAGGTAAGTCCACTATG
GATAAATGGGTGAGACAGTTAAAACTAGAACGCCAGGGTGGCACACCAAAAGCATCTCCGATTACCCCTGAACAAATTGAAATCCGTGAGCTGAAGAAGC
AAATAGCTCGTCTTGAGGAGCACAATCTTATCCTAAAAAAGGCTACCGCTCTCTTGATGTCAGACTCGATGAACAATTTACGCTAATCAGCGCACTCAAG
CAGAGCCACTCTATTCTCACAATTTGTAATGCATTCAAAGTGCATCGAAGTAGCTATAAGTATTGGCTAAAAAGAAAAGAACATATTGATGCAGACTTTA
CTATTTTATGCAGTGAAGTGAAGGCTGCACATCGTATTAGTCATGGCTCTGCCGGTGCGCGAACGATAGCGCAATTAGTGACTAACAAAGGGATTGGTCT
CAGTCGTTATCGAGCCCGTAATCTAATGAAAAAGCTTGGGTTATTAAGCTGTCAGCAGCCTAAGCATTCTTATAGAAAAGCGACACAAGAGCATGTTGCA
ATCCCCAATACGCTTAATCGACAGTTTGCAGTAACTCAACCAGATCAAGTGTGGTGTGGCGACGTGACGTATGTTTGGGTCGGTAATCGTTGGGCCTATC
TAGCCGTTGTTTTAGACTTATTTTCCCGCAAACCTGTTGGATGGGCTTTGTCATTATCACCAGATAGTGAGCTGACCTGTAAAGCTTTGAAAATGGCATT
TGAGTTAAGGGGGAAGCCTGAGAATGTGATATATCACAGCGATCAAGGTTCGCATTACACAAGCTTGAAATTCAGACAATTAATATGGCGTCTTCAGATT
GAGCAAAGTATGAGTCGTCGCGGGAATTGTTGGGATAACGCACCAATGGAGCGTTTCTTTAGAAGTTTGAAATCTGAGTGGATACCCGCCAGTGGTTATG
GGAATTTTACAGAAGCAGATAAAGAGATCACAAATTACATCACTGGATATTACAGTGAGACCAGACCCCATCAATATAATGGTGGGTTAACGCCAAATGA
GTCAGAACGTTTATATTGGAATGACTCTAAAACCGTGGCCAATTTTACTTGACCACTACA
TAGTGCTGAATTCAAACTTGAAGCAGCCCAATTAGTCCTCGATAAAAACCATAGCATCATCGAAGCTGCAAAGGCGATGAACGTAGGTAAGTCCACTATG
GATAAATGGGTGAGACAGTTAAAACTAGAACGCCAGGGTGGCACACCAAAAGCATCTCCGATTACCCCTGAACAAATTGAAATCCGTGAGCTGAAGAAGC
AAATAGCTCGTCTTGAGGAGCACAATCTTATCCTAAAAAAGGCTACCGCTCTCTTGATGTCAGACTCGATGAACAATTTACGCTAATCAGCGCACTCAAG
CAGAGCCACTCTATTCTCACAATTTGTAATGCATTCAAAGTGCATCGAAGTAGCTATAAGTATTGGCTAAAAAGAAAAGAACATATTGATGCAGACTTTA
CTATTTTATGCAGTGAAGTGAAGGCTGCACATCGTATTAGTCATGGCTCTGCCGGTGCGCGAACGATAGCGCAATTAGTGACTAACAAAGGGATTGGTCT
CAGTCGTTATCGAGCCCGTAATCTAATGAAAAAGCTTGGGTTATTAAGCTGTCAGCAGCCTAAGCATTCTTATAGAAAAGCGACACAAGAGCATGTTGCA
ATCCCCAATACGCTTAATCGACAGTTTGCAGTAACTCAACCAGATCAAGTGTGGTGTGGCGACGTGACGTATGTTTGGGTCGGTAATCGTTGGGCCTATC
TAGCCGTTGTTTTAGACTTATTTTCCCGCAAACCTGTTGGATGGGCTTTGTCATTATCACCAGATAGTGAGCTGACCTGTAAAGCTTTGAAAATGGCATT
TGAGTTAAGGGGGAAGCCTGAGAATGTGATATATCACAGCGATCAAGGTTCGCATTACACAAGCTTGAAATTCAGACAATTAATATGGCGTCTTCAGATT
GAGCAAAGTATGAGTCGTCGCGGGAATTGTTGGGATAACGCACCAATGGAGCGTTTCTTTAGAAGTTTGAAATCTGAGTGGATACCCGCCAGTGGTTATG
GGAATTTTACAGAAGCAGATAAAGAGATCACAAATTACATCACTGGATATTACAGTGAGACCAGACCCCATCAATATAATGGTGGGTTAACGCCAAATGA
GTCAGAACGTTTATATTGGAATGACTCTAAAACCGTGGCCAATTTTACTTGACCACTACA
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 | |
---|---|---|---|---|---|
312 bp | 103 aa | 75 | 386 | + | No |
Description : First part of the transposase
ORF sequence :
MRSTTRKTFSAEFKLEAAQLVLDKNHSIIEAAKAMNVGKSTMDKWVRQLKLERQGGTPKASPITPEQIEIRELKKQIARLEEHNLILKKATALLMSDSMN
NLR
NLR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
866 bp | 303 aa | 387 | 1252 | + | No |
Description : Second part of the transposase
ORF sequence :
GYRSLDVRLDEQFTLISALKQSHSILTICNAFKVHRSSYKYWLKRKEHIDADFTILCSEVKAAHRISHGSAGARTIAQLVTNKGIGLSRYRARNLMKKLG
LLSCQQPKHSYRKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHS
DQGSHYTSLKFRQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVA
NFT
LLSCQQPKHSYRKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHS
DQGSHYTSLKFRQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVA
NFT
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1178 bp | 392 aa | 75 | 1252 | + | Yes |
Chemistry : DDE
ORF sequence :
MRSTTRKTFSAEFKLEAAQLVLDKNHSIIEAAKAMNVGKSTMDKWVRQLKLERQGGTPKASPITPEQIEIRELKKQIARLEEHNLILKKGYRSLDVRLDE
QFTLISALKQSHSILTICNAFKVHRSSYKYWLKRKEHIDADFTILCSEVKAAHRISHGSAGARTIAQLVTNKGIGLSRYRARNLMKKLGLLSCQQPKHSY
RKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHSDQGSHYTSLKF
RQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVANFT
QFTLISALKQSHSILTICNAFKVHRSSYKYWLKRKEHIDADFTILCSEVKAAHRISHGSAGARTIAQLVTNKGIGLSRYRARNLMKKLGLLSCQQPKHSY
RKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHSDQGSHYTSLKF
RQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVANFT
Blast result :
Comments
There are 7 copies of ISSba5 encoded in the Shewanella baltica OS155 genome. 1 copy is interrupted by a different IS element. ORF3 is the deduced product of programmed frameshifting of ORF1 and ORF2. The ISSba5 transposase has 56% identity with IS911_aa3.
References
1] Romine, M. (2008) Direct submission.