ISSde8
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007954 | ND | Shewanella denitrificans | Shewanella denitrificans OS217 |
DNA section
IS Length : 1256 bp
Ends
IR Length : 26/35
IRL : TGTAATGGTCTAATGAAACTGGAGTGATTTTCAGCTTAAAATACACAAAA
IRR : TGTAATGGTCAAGTTTTTCTGGAGAGATTTTAAGCCGCTTTTTTTAACTC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTCAAAGGGG | ATAGTGGTGC | 0 | |
| CCATTATCCT | GTCAGGAACA | 0 | |
| CTCCAAG | AGG | GAGGGTT | 3 |
| GCTTTCT | CTA | ATAAAAA | 3 |
| CGCTGGT | TTC | TCTTCAA | 3 |
DNA sequence
TGTAATGGTCTAATGAAACTGGAGTGATTTTCAGCTTAAAATACACAAAATCTTATCGGTATTAAACATGACCAGAAAAAGCGCAGTCCATATCAGCCCT
CTTCAAAAATTAGAATATGCCAAGCTGATGGTCGAACAGGGTTACACCAACAAGCAAATTGAAGATATGTCAGGTGCCGGTAAATCTGCGGTGTCTAGAT
GGAAAGTGCAGTATCAAGCTGAATTAGCCGGTGAAACCCCAGAAAATGCCAAAGCATTAACTGAAGACCAACGAAGAATACAGCTTCTAGAAGCCCAACT
AAAACAAGCCATGAGGGATAATGATATCTTAAAAAAGGCTGCAGCTTTCTTCATTCGAGACAATCAAAACTTAAAATGATGCGCGAAGTAAAGAAAGCAA
ACCCCGAGTTTAAAGTGAATGAGTTATGTCGCGCCTTCGAAATAAGTTGCAGTAGTTTCTATTACAAACCAATACCGTTAAGTATTAAGAAACAGTCAGT
TATGCAGTTGGTTGAGGAAGTTTTCACTGATTCTTACTCTACTTATGGCAAACGAAGAATACAGGCTGAACTACTTGATTTAGATTGTAGAGTAGGTGTT
TACGCTATTTCTACGGTCATGAAAAACTTGGGGCTAAGGGCGATTAGGCCAAAGAAAAAGCATTACTATCCTAACCAAGGTGAGGAGCAAGTTTACGCCC
CTAATTTGCTTAGACGACAGTTTAATCCTACGACTTATAATACTCACTGGGTTGGTGATATTACCTATATAAAATCACATCAAGGCTGGAGTTATTTAGC
CTGTGTGCTTGATTTAGGAACCAAAGAGATCGTTGGATATGCTTTATCAAGTCAACCCAATGCAGCATTAGCGACAGCGGCCTTAAATAACGCGATACAA
CGTAAGAGGCCCAATACACAGGCATTGATGTTTCACTCCGACCAGGGCTGTCAGTACTCAGCCAAAGTGTTTAGAGAGCGGCTAAAACACTTAGGTATCG
AGCAAAGCATGAGTCGTAGAGGCAATTGCTGGGATAATGCGGTGATGGAACGATTTTTTAGGAGTTTAAAGACTGAAAGATTAAACCATTTAGCATTTAT
AAATCACAGCGCAGTAGTGAGCGTGGTTGAGCAATATATTCAGTTCTACAATTACAAACGCAGACATTCGGCAATAGATTATAAGACGCCACATCAAAAA
TATAATGAGTTAAAAAAAGCGGCTTAAAATCTCTCCAGAAAAACTTGACCATTACA
CTTCAAAAATTAGAATATGCCAAGCTGATGGTCGAACAGGGTTACACCAACAAGCAAATTGAAGATATGTCAGGTGCCGGTAAATCTGCGGTGTCTAGAT
GGAAAGTGCAGTATCAAGCTGAATTAGCCGGTGAAACCCCAGAAAATGCCAAAGCATTAACTGAAGACCAACGAAGAATACAGCTTCTAGAAGCCCAACT
AAAACAAGCCATGAGGGATAATGATATCTTAAAAAAGGCTGCAGCTTTCTTCATTCGAGACAATCAAAACTTAAAATGATGCGCGAAGTAAAGAAAGCAA
ACCCCGAGTTTAAAGTGAATGAGTTATGTCGCGCCTTCGAAATAAGTTGCAGTAGTTTCTATTACAAACCAATACCGTTAAGTATTAAGAAACAGTCAGT
TATGCAGTTGGTTGAGGAAGTTTTCACTGATTCTTACTCTACTTATGGCAAACGAAGAATACAGGCTGAACTACTTGATTTAGATTGTAGAGTAGGTGTT
TACGCTATTTCTACGGTCATGAAAAACTTGGGGCTAAGGGCGATTAGGCCAAAGAAAAAGCATTACTATCCTAACCAAGGTGAGGAGCAAGTTTACGCCC
CTAATTTGCTTAGACGACAGTTTAATCCTACGACTTATAATACTCACTGGGTTGGTGATATTACCTATATAAAATCACATCAAGGCTGGAGTTATTTAGC
CTGTGTGCTTGATTTAGGAACCAAAGAGATCGTTGGATATGCTTTATCAAGTCAACCCAATGCAGCATTAGCGACAGCGGCCTTAAATAACGCGATACAA
CGTAAGAGGCCCAATACACAGGCATTGATGTTTCACTCCGACCAGGGCTGTCAGTACTCAGCCAAAGTGTTTAGAGAGCGGCTAAAACACTTAGGTATCG
AGCAAAGCATGAGTCGTAGAGGCAATTGCTGGGATAATGCGGTGATGGAACGATTTTTTAGGAGTTTAAAGACTGAAAGATTAAACCATTTAGCATTTAT
AAATCACAGCGCAGTAGTGAGCGTGGTTGAGCAATATATTCAGTTCTACAATTACAAACGCAGACATTCGGCAATAGATTATAAGACGCCACATCAAAAA
TATAATGAGTTAAAAAAAGCGGCTTAAAATCTCTCCAGAAAAACTTGACCATTACA
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 | 68 | 379 | + | No |
Description : First part of the transposase
ORF sequence :
MTRKSAVHISPLQKLEYAKLMVEQGYTNKQIEDMSGAGKSAVSRWKVQYQAELAGETPENAKALTEDQRRIQLLEAQLKQAMRDNDILKKAAAFFIRDNQ
NLK
NLK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 852 bp | 283 aa | 376 | 1227 | + | No |
Description : Second part of the transposase
ORF sequence :
MMREVKKANPEFKVNELCRAFEISCSSFYYKPIPLSIKKQSVMQLVEEVFTDSYSTYGKRRIQAELLDLDCRVGVYAISTVMKNLGLRAIRPKKKHYYPN
QGEEQVYAPNLLRRQFNPTTYNTHWVGDITYIKSHQGWSYLACVLDLGTKEIVGYALSSQPNAALATAALNNAIQRKRPNTQALMFHSDQGCQYSAKVFR
ERLKHLGIEQSMSRRGNCWDNAVMERFFRSLKTERLNHLAFINHSAVVSVVEQYIQFYNYKRRHSAIDYKTPHQKYNELKKAA
QGEEQVYAPNLLRRQFNPTTYNTHWVGDITYIKSHQGWSYLACVLDLGTKEIVGYALSSQPNAALATAALNNAIQRKRPNTQALMFHSDQGCQYSAKVFR
ERLKHLGIEQSMSRRGNCWDNAVMERFFRSLKTERLNHLAFINHSAVVSVVEQYIQFYNYKRRHSAIDYKTPHQKYNELKKAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1160 bp | 386 aa | 68 | 1227 | + | Yes |
Chemistry : DDE
ORF sequence :
MTRKSAVHISPLQKLEYAKLMVEQGYTNKQIEDMSGAGKSAVSRWKVQYQAELAGETPENAKALTEDQRRIQLLEAQLKQAMRDNDILKKGCSFLHSRQS
KLKMMREVKKANPEFKVNELCRAFEISCSSFYYKPIPLSIKKQSVMQLVEEVFTDSYSTYGKRRIQAELLDLDCRVGVYAISTVMKNLGLRAIRPKKKHY
YPNQGEEQVYAPNLLRRQFNPTTYNTHWVGDITYIKSHQGWSYLACVLDLGTKEIVGYALSSQPNAALATAALNNAIQRKRPNTQALMFHSDQGCQYSAK
VFRERLKHLGIEQSMSRRGNCWDNAVMERFFRSLKTERLNHLAFINHSAVVSVVEQYIQFYNYKRRHSAIDYKTPHQKYNELKKAA
KLKMMREVKKANPEFKVNELCRAFEISCSSFYYKPIPLSIKKQSVMQLVEEVFTDSYSTYGKRRIQAELLDLDCRVGVYAISTVMKNLGLRAIRPKKKHY
YPNQGEEQVYAPNLLRRQFNPTTYNTHWVGDITYIKSHQGWSYLACVLDLGTKEIVGYALSSQPNAALATAALNNAIQRKRPNTQALMFHSDQGCQYSAK
VFRERLKHLGIEQSMSRRGNCWDNAVMERFFRSLKTERLNHLAFINHSAVVSVVEQYIQFYNYKRRHSAIDYKTPHQKYNELKKAA
Blast result :
Comments
The transposase encoded by ISSde8 is predicted to undergo a -1 programmed frameshift (IS PEP 3). The ISSde8 transposase (ORFAB) has 38% identity to ISPosp5. There are 5 copies of ISSde8 encoded in the Shewanella denitrificans genome. One is interrupted by ISSde5.
References
1] Romine, M. F. (2008) Direct submission.