ISSse3
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009831 | ND | Shewanella sediminis | Shewanella sediminis HAW-EB3 |
DNA section
IS Length : 1203 bp
Ends
IR Length : 29/41
IRL : TGTAACCCTCCCCTAAAATAGTCTCATGCATAATTAGAGTTCTCCCGGTA
IRR : TGTAAACCTCCCTATTTTAGTTCCACTTAAAAATAGAGTTTCCTCCCTGT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTCAGTGGCT | TAATGCTGTT | 0 |
DNA sequence
TGTAACCCTCCCCTAAAATAGTCTCATGCATAATTAGAGTTCTCCCGGTACACTGAAATCTCAAGGAGAACGACAATGAAGAAATCACGCTATACCGAAA
CTCAGATAATTAAGATCCTGAAAGAAGTTGAAGGTGGTCGTCTGATCAAGGAAGTCAGCCGAGAATACGGTATTTCAGAGGCTACCTATTACAACTGGAA
GAGTAAGTTCGGTGGTATGGAAGCCTCAGACATTAAACGCTTACGCGAGCTTGAAGATGAAAATCGACGCTTAAAACAGATGTTTGCAGACATCAGTTTG
GAACATAAGATCCTCAAAGATCTCGTCGAAAAAAAGCTCTGAAGCCAGCGGTCAGGCGTGAACTGGTTGATTATGTGCTCAATGTACATCAAACCAGTAT
CCGACTTGCCTGCCGCGTTGTTGGCATCAGTCCATCGGTATACCGTTATCAGCCTGATAAGTGCCGGGATGACCCCGTTATTGCCGCACTTCAGGAGCAT
GCCGAAAAATACCCGGCATACGGGTTTGGCAAGCTGTTTAAAGTCCTTAGACGCAAGGGAAAGTCATGGAACCATAAACGTGTTTACCGTGTGTATTGCG
AGCTTAAATTGAACTTCCGTCGCAAGGGCAAGAAACGCCTGCCGAATCGCAATCCCGCACCGTTAGCGGTTCCTGAGGCAATGAATCAATGTTGGTCGAT
GGACTTTATGTGTGACAGTTTACACTGCGGGCATCGCTTCCGAACGTTTAATGTCATTGATGATTTTAACCGGGAAATATTGGCTATCGAAGTCGATTTA
AGCCTCCCGGCCCAACGCGTTATCAGAGTGCTGGAGCGGATTATTGCCTGGCGTGGTATGCCACAAAAGCTGCGGATGGATAATGGTCCAGAGTTTATCT
CACTGGCTTTAGCAGATTGGGCAGAGCATAACCGAGTTCAACTGGAACACATAAAACCAGGGAAGCCGACACAAAATTCGTATATCGAGCGATTTAACCG
CACATATCGAACAGAAATTTTGGATATGTATTTGTTTAAAAGTCTCAGGGAAGTACGTGAAATTACTGATAACTGGATGAATGAATATAACGAAGAGCGG
CCACATGATTCACTTGGAGATATCACTTCGTGGGTATATCTGGCGAGCAAGAAACAGGGAGGAAACTCTATTTTTAAGTGGAACTAAAATAGGGAGGTTT
ACA
CTCAGATAATTAAGATCCTGAAAGAAGTTGAAGGTGGTCGTCTGATCAAGGAAGTCAGCCGAGAATACGGTATTTCAGAGGCTACCTATTACAACTGGAA
GAGTAAGTTCGGTGGTATGGAAGCCTCAGACATTAAACGCTTACGCGAGCTTGAAGATGAAAATCGACGCTTAAAACAGATGTTTGCAGACATCAGTTTG
GAACATAAGATCCTCAAAGATCTCGTCGAAAAAAAGCTCTGAAGCCAGCGGTCAGGCGTGAACTGGTTGATTATGTGCTCAATGTACATCAAACCAGTAT
CCGACTTGCCTGCCGCGTTGTTGGCATCAGTCCATCGGTATACCGTTATCAGCCTGATAAGTGCCGGGATGACCCCGTTATTGCCGCACTTCAGGAGCAT
GCCGAAAAATACCCGGCATACGGGTTTGGCAAGCTGTTTAAAGTCCTTAGACGCAAGGGAAAGTCATGGAACCATAAACGTGTTTACCGTGTGTATTGCG
AGCTTAAATTGAACTTCCGTCGCAAGGGCAAGAAACGCCTGCCGAATCGCAATCCCGCACCGTTAGCGGTTCCTGAGGCAATGAATCAATGTTGGTCGAT
GGACTTTATGTGTGACAGTTTACACTGCGGGCATCGCTTCCGAACGTTTAATGTCATTGATGATTTTAACCGGGAAATATTGGCTATCGAAGTCGATTTA
AGCCTCCCGGCCCAACGCGTTATCAGAGTGCTGGAGCGGATTATTGCCTGGCGTGGTATGCCACAAAAGCTGCGGATGGATAATGGTCCAGAGTTTATCT
CACTGGCTTTAGCAGATTGGGCAGAGCATAACCGAGTTCAACTGGAACACATAAAACCAGGGAAGCCGACACAAAATTCGTATATCGAGCGATTTAACCG
CACATATCGAACAGAAATTTTGGATATGTATTTGTTTAAAAGTCTCAGGGAAGTACGTGAAATTACTGATAACTGGATGAATGAATATAACGAAGAGCGG
CCACATGATTCACTTGGAGATATCACTTCGTGGGTATATCTGGCGAGCAAGAAACAGGGAGGAAACTCTATTTTTAAGTGGAACTAAAATAGGGAGGTTT
ACA
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 | |
|---|---|---|---|---|---|
| 267 bp | 88 aa | 76 | 342 | + | No |
Description : First part of the transposase
ORF sequence :
MKKSRYTETQIIKILKEVEGGRLIKEVSREYGISEATYYNWKSKFGGMEASDIKRLRELEDENRRLKQMFADISLEHKILKDLVEKKL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 858 bp | 285 aa | 330 | 1187 | + | No |
Description : Second part of the transposase
ORF sequence :
KKALKPAVRRELVDYVLNVHQTSIRLACRVVGISPSVYRYQPDKCRDDPVIAALQEHAEKYPAYGFGKLFKVLRRKGKSWNHKRVYRVYCELKLNFRRKG
KKRLPNRNPAPLAVPEAMNQCWSMDFMCDSLHCGHRFRTFNVIDDFNREILAIEVDLSLPAQRVIRVLERIIAWRGMPQKLRMDNGPEFISLALADWAEH
NRVQLEHIKPGKPTQNSYIERFNRTYRTEILDMYLFKSLREVREITDNWMNEYNEERPHDSLGDITSWVYLASKKQGGNSIFKWN
KKRLPNRNPAPLAVPEAMNQCWSMDFMCDSLHCGHRFRTFNVIDDFNREILAIEVDLSLPAQRVIRVLERIIAWRGMPQKLRMDNGPEFISLALADWAEH
NRVQLEHIKPGKPTQNSYIERFNRTYRTEILDMYLFKSLREVREITDNWMNEYNEERPHDSLGDITSWVYLASKKQGGNSIFKWN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1112 bp | 370 aa | 76 | 1187 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKSRYTETQIIKILKEVEGGRLIKEVSREYGISEATYYNWKSKFGGMEASDIKRLRELEDENRRLKQMFADISLEHKILKDLVEKKALKPAVRRELVDY
VLNVHQTSIRLACRVVGISPSVYRYQPDKCRDDPVIAALQEHAEKYPAYGFGKLFKVLRRKGKSWNHKRVYRVYCELKLNFRRKGKKRLPNRNPAPLAVP
EAMNQCWSMDFMCDSLHCGHRFRTFNVIDDFNREILAIEVDLSLPAQRVIRVLERIIAWRGMPQKLRMDNGPEFISLALADWAEHNRVQLEHIKPGKPTQ
NSYIERFNRTYRTEILDMYLFKSLREVREITDNWMNEYNEERPHDSLGDITSWVYLASKKQGGNSIFKWN
VLNVHQTSIRLACRVVGISPSVYRYQPDKCRDDPVIAALQEHAEKYPAYGFGKLFKVLRRKGKSWNHKRVYRVYCELKLNFRRKGKKRLPNRNPAPLAVP
EAMNQCWSMDFMCDSLHCGHRFRTFNVIDDFNREILAIEVDLSLPAQRVIRVLERIIAWRGMPQKLRMDNGPEFISLALADWAEHNRVQLEHIKPGKPTQ
NSYIERFNRTYRTEILDMYLFKSLREVREITDNWMNEYNEERPHDSLGDITSWVYLASKKQGGNSIFKWN
Blast result :
Comments
There is one copy of ISSse3 encoded in the Shewanella sediminis chromosome. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift and has 76% identity with ISLpn8.
References
1] Romine, M.F. (2009) Direct submission.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Chertkov,O., Brettin,T., Bruce,D., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Zhao,J.-S. and Richardson,P. (2007) Direct submission GenBank.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Chertkov,O., Brettin,T., Bruce,D., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Zhao,J.-S. and Richardson,P. (2007) Direct submission GenBank.