ISSse1
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009831 | ND | Shewanella sediminis | Shewanella sediminis |
DNA section
IS Length : 1251 bp
Ends
IR Length : 22/26
IRL : TGATGTGACCCCCTAAAAGTGGACACCTTATATAAGCGATAAGGTGTCAT
IRR : TGATATGACCCCGATAAAGTAGACACGGGGTTCAAATTCTTGATTCAAAG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TGGCCGCCTA | ACC | TCGAAACTCG | 3 |
DNA sequence
TGATGTGACCCCCTAAAAGTGGACACCTTATATAAGCGATAAGGTGTCATGAAAATTAGATCACAAAGAGTCCACACAGAAGCCTTCAAGTTGGCAGCTG
TTCAACAGTCTTTAAACTCTCCCGATACAGTGAAGGCTTTAGCTGGTAAATTAGGTATCCACCCAGCTTTGCTCAGTAAATGGAGAGCCCAATTGACGTC
TAAGAAGCACACTTCAAAACCTATTGATAATATTGGCCCTAATAAGAGCCTAACTGAACTTGAACGTGAAATCCGTGAGCTTAAAAAGCGATTAGAGCGT
GCAGAGTTGGAGAACGATATCTTAAAAAAGGCGAAGGAGTTCTTCGACAAACACCAGGGATAAAGTTTAATTTTATCCAAGGTTATTGCTCAACTCGAAG
AACGATAAAAATGCTTTGCGATGTACTCGATGTATCGCGCTCAGGCTATTACAGCTGGCTTAACCGTGAGCCTTCTGAACGAAGTAAAGCTAACAAAGTA
CTATCTGATTTTCTCAAAGAAAAGATAGATGAGCACAATGGGATTGCTGGTTATAGAAAGCTATGGCTAGATGCTTTAGCCAATGGGTTTGCCTGCAATA
AGAAGCGCGTACAGCGCTTGCTACAGACGTTTGGTTACCGCTCTAGGGCATGTAAAAGGAAGTTTGGCGTAGTGAAACCTAAGCTGATAGAGACCAGAGC
TCCTAACTACTTAAACAGGGAGTTTGAAGTGGCTAAACCTAACACTATTTGGGTGTCTGATATCACTCAAGTTAGGTGCAAAGAGGGCTGGCAGTATCTG
TGTGTCATTATCGACTTGTACTCGCGTAAAGTAGTGAGCTGGGCAACCAGCTACATAAACTCGAGCGAACTGGTGATGAAGTCACTCAAGCAAGCATGGG
CTGAACGTAGGCCAAATGGGAGTGAACTGATGTTTCACTCAGACCAAGGCGTGCAGTACAGAAGCTTTGAGGTGCTTAAATGCCTAACGAAACGTGAAGT
TACGGTAAGCATGTCCAGGAAGGGAAACTGTTGGGATAATGCGTGCTCAGAAAGCTTTTTTGCTCAGTTAAAGAAAGAGTGGTTCTCTAATCTTGAAGAA
CTAAGCAGAAGAGAGATGACAACTCAGTGTCGATTTTATATCGATGATTATTATAATATGGTGAGAAGGCATGGGACTCTAAATGGAGTGAGCCCCATAA
CCTTTGAATCAAGAATTTGAACCCCGTGTCTACTTTATCGGGGTCATATCA
TTCAACAGTCTTTAAACTCTCCCGATACAGTGAAGGCTTTAGCTGGTAAATTAGGTATCCACCCAGCTTTGCTCAGTAAATGGAGAGCCCAATTGACGTC
TAAGAAGCACACTTCAAAACCTATTGATAATATTGGCCCTAATAAGAGCCTAACTGAACTTGAACGTGAAATCCGTGAGCTTAAAAAGCGATTAGAGCGT
GCAGAGTTGGAGAACGATATCTTAAAAAAGGCGAAGGAGTTCTTCGACAAACACCAGGGATAAAGTTTAATTTTATCCAAGGTTATTGCTCAACTCGAAG
AACGATAAAAATGCTTTGCGATGTACTCGATGTATCGCGCTCAGGCTATTACAGCTGGCTTAACCGTGAGCCTTCTGAACGAAGTAAAGCTAACAAAGTA
CTATCTGATTTTCTCAAAGAAAAGATAGATGAGCACAATGGGATTGCTGGTTATAGAAAGCTATGGCTAGATGCTTTAGCCAATGGGTTTGCCTGCAATA
AGAAGCGCGTACAGCGCTTGCTACAGACGTTTGGTTACCGCTCTAGGGCATGTAAAAGGAAGTTTGGCGTAGTGAAACCTAAGCTGATAGAGACCAGAGC
TCCTAACTACTTAAACAGGGAGTTTGAAGTGGCTAAACCTAACACTATTTGGGTGTCTGATATCACTCAAGTTAGGTGCAAAGAGGGCTGGCAGTATCTG
TGTGTCATTATCGACTTGTACTCGCGTAAAGTAGTGAGCTGGGCAACCAGCTACATAAACTCGAGCGAACTGGTGATGAAGTCACTCAAGCAAGCATGGG
CTGAACGTAGGCCAAATGGGAGTGAACTGATGTTTCACTCAGACCAAGGCGTGCAGTACAGAAGCTTTGAGGTGCTTAAATGCCTAACGAAACGTGAAGT
TACGGTAAGCATGTCCAGGAAGGGAAACTGTTGGGATAATGCGTGCTCAGAAAGCTTTTTTGCTCAGTTAAAGAAAGAGTGGTTCTCTAATCTTGAAGAA
CTAAGCAGAAGAGAGATGACAACTCAGTGTCGATTTTATATCGATGATTATTATAATATGGTGAGAAGGCATGGGACTCTAAATGGAGTGAGCCCCATAA
CCTTTGAATCAAGAATTTGAACCCCGTGTCTACTTTATCGGGGTCATATCA
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 | |
|---|---|---|---|---|---|
| 315 bp | 104 aa | 49 | 363 | + | No |
Description : First part of the transposase
ORF sequence :
MKIRSQRVHTEAFKLAAVQQSLNSPDTVKALAGKLGIHPALLSKWRAQLTSKKHTSKPIDNIGPNKSLTELEREIRELKKRLERAELENDILKKAKEFFD
KHQG
KHQG
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 936 bp | 311 aa | 285 | 1220 | + | No |
Description : Second part of the transposase
ORF sequence :
KAIRACRVGERYLKKGEGVLRQTPGIKFNFIQGYCSTRRTIKMLCDVLDVSRSGYYSWLNREPSERSKANKVLSDFLKEKIDEHNGIAGYRKLWLDALAN
GFACNKKRVQRLLQTFGYRSRACKRKFGVVKPKLIETRAPNYLNREFEVAKPNTIWVSDITQVRCKEGWQYLCVIIDLYSRKVVSWATSYINSSELVMKS
LKQAWAERRPNGSELMFHSDQGVQYRSFEVLKCLTKREVTVSMSRKGNCWDNACSESFFAQLKKEWFSNLEELSRREMTTQCRFYIDDYYNMVRRHGTLN
GVSPITFESRI
GFACNKKRVQRLLQTFGYRSRACKRKFGVVKPKLIETRAPNYLNREFEVAKPNTIWVSDITQVRCKEGWQYLCVIIDLYSRKVVSWATSYINSSELVMKS
LKQAWAERRPNGSELMFHSDQGVQYRSFEVLKCLTKREVTVSMSRKGNCWDNACSESFFAQLKKEWFSNLEELSRREMTTQCRFYIDDYYNMVRRHGTLN
GVSPITFESRI
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1172 bp | 390 aa | 49 | 1220 | + | Yes |
Chemistry : DDE
ORF sequence :
MKIRSQRVHTEAFKLAAVQQSLNSPDTVKALAGKLGIHPALLSKWRAQLTSKKHTSKPIDNIGPNKSLTELEREIRELKKRLERAELENDILKKGEGVLR
QTPGIKFNFIQGYCSTRRTIKMLCDVLDVSRSGYYSWLNREPSERSKANKVLSDFLKEKIDEHNGIAGYRKLWLDALANGFACNKKRVQRLLQTFGYRSR
ACKRKFGVVKPKLIETRAPNYLNREFEVAKPNTIWVSDITQVRCKEGWQYLCVIIDLYSRKVVSWATSYINSSELVMKSLKQAWAERRPNGSELMFHSDQ
GVQYRSFEVLKCLTKREVTVSMSRKGNCWDNACSESFFAQLKKEWFSNLEELSRREMTTQCRFYIDDYYNMVRRHGTLNGVSPITFESRI
QTPGIKFNFIQGYCSTRRTIKMLCDVLDVSRSGYYSWLNREPSERSKANKVLSDFLKEKIDEHNGIAGYRKLWLDALANGFACNKKRVQRLLQTFGYRSR
ACKRKFGVVKPKLIETRAPNYLNREFEVAKPNTIWVSDITQVRCKEGWQYLCVIIDLYSRKVVSWATSYINSSELVMKSLKQAWAERRPNGSELMFHSDQ
GVQYRSFEVLKCLTKREVTVSMSRKGNCWDNACSESFFAQLKKEWFSNLEELSRREMTTQCRFYIDDYYNMVRRHGTLNGVSPITFESRI
Blast result :
Comments
There is one copy of ISSse1 encoded in the Shewanella sediminis genome. The transposase encoded by ISSse1 has 38% identity to ISHor1_aa3. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Romine, M.F. (2008) Direct submission.