ISSde10
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007954 | ND | Shewanella denitrificans | Shewanella denitrificans OS217 |
DNA section
IS Length : 1671 bp
Ends
IR Length : 20/30
IRL : CCCCCTGTGTCAGGATAGTTGTCACCCCTTAAAAATCACTATTGTATAAA
IRR : CGGTGTTTTTCAAGGTAGTTGTCACTCTTTGCTTAAATATTAAGCTGCAT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TGCGCTGCTG | GGCG | GATGAAACTG | 4 |
| ATAGCTGCTG | AGTT | CTTGAAGTCT | 4 |
| TCATCATGAT | AGGT | GAGGCCGTAC | 4 |
DNA sequence
CCCCCTGTGTCAGGATAGTTGTCACCCCTTAAAAATCACTATTGTATAAAGACAGGGGGCGGTAACAGAGAACGATATGGCTCGGTATTCACAAGAACGT
AAGGACTCGATCCTTAAAAAGTTATTACCCCCGCACAATTTAACCGTTGCAGAGGTTGCACGAGAAGAAGGCATGGCAGTGCAAACCTTGTATCATTGGC
GAGATAATGCCAGAAAAGAAGGTCGTCCAGTGCCAGGTAAAACATTAACAACCGATGATTGGTCAGCAGAAGCCAAGCTTGCCGTCATTATCGAAACTGC
ACCGATGTCAGAAGCTGAAGTGAGTCAATACTGCCGAGAAAAAGGCTTGTTCCGCGAACAAGTTCAGCAGTGGAAACTCGATTGTTTGGCTGGTTTTCAA
ACCAGTGAAGTGCAAGCTAAAACGATTAAACAACAGGCTAAAGCCGACAAAGCAGAAATCAAATCCCTGAAGCATGAATTACGCTACAAGGAGAAGGCGC
TAGCTGAAGCTGCTGCTTTACTGGTGCTCATAAAAAAGCTCAATGCGCTCTGGGAGGGCGACAACGAGGAGAGTTAACGTCCTTACCTGAGCGCACAAAA
TTAATGATATTAATACAAGAAGCTTATGCCAATGGTGCGCGCCTTTACAAGGCTTGTATTGAAGCTGAGCTCAGTAAGCGTACCTATCGACGTTGGTATC
GAGCGGGTGTGGTGCAGGCTGATTTAAGGCCAACAGCGTTTCGGCCAGAGCCCGCCAACAAGCTAAAAGAGCATGAACGAGAGCAGATATTAGCGGTATG
CAATGAGCCTGAATATGCCAGCTTACCTCCCTCACAAATAGTGCCAACACTATTGGATAAGGGGATTTATATTGCATCAGAGGCCAGTTTCTACAGGGTA
TTAGATGCCAATGACCAGCTTAACCATAGAGGTCGCAGCCAAGTTGCAGTTAACCGCAGTAAGCCACTTAGTTACACGGCCGATGGCCCAAACCAAGTGT
GGTCCTGGGACATCACGTATCTGGCCTCAGTAGTTAAAGGTCAGTTTTACTACCTGTACATGTTTGAGGATATTTACAGCCGAAAAATCGTCGGTTATGA
AGTCCATGAACAAGAATGTGGCGAGCGTGCCGCTGAGCTAATCCAACGCAGCATGCTACGGGAACAATGCTTTAAAAAGCCACTGGTGTTGCACTCTGAC
AATGGTGCGCCAATGAAGTCTCTGACGATGAAGGCCAAGCTTGAAGAGCTGGGTGTTACCGCTTCACTGAGCCGGCCTAGAGTGAGTAACGACAACCCCT
ATTCAGAGTCATTATTTAAGACCTTAAAATACCGTCCGCAATGGCCAAAATCAGGTTTTAGCAGTTTAGCCGCAGCAAGGGAATGGGTTGAGAAGTTTGT
GAAGTGGTACAACGATGAGCATAAACATAGCAAGCTTAACTTTGTCTCACCAGGGCAACGTCATGCGTTGCAAGATAGCGCTATCTTAGACAAGCGAAAG
AAAGTTCTCGAAGCGGCTAAGGCAAGAAACCCCAAGCGTTGGTCCAAGGACGTTAGAAATTGTGAGGCGGTTGGCCCAGTAATGCTAAACCCAGATAAGG
CACCCGCAGACGATGTAATAAATGCAGCTTAATATTTAAGCAAAGAGTGACAACTACCTTGAAAAACACCG
AAGGACTCGATCCTTAAAAAGTTATTACCCCCGCACAATTTAACCGTTGCAGAGGTTGCACGAGAAGAAGGCATGGCAGTGCAAACCTTGTATCATTGGC
GAGATAATGCCAGAAAAGAAGGTCGTCCAGTGCCAGGTAAAACATTAACAACCGATGATTGGTCAGCAGAAGCCAAGCTTGCCGTCATTATCGAAACTGC
ACCGATGTCAGAAGCTGAAGTGAGTCAATACTGCCGAGAAAAAGGCTTGTTCCGCGAACAAGTTCAGCAGTGGAAACTCGATTGTTTGGCTGGTTTTCAA
ACCAGTGAAGTGCAAGCTAAAACGATTAAACAACAGGCTAAAGCCGACAAAGCAGAAATCAAATCCCTGAAGCATGAATTACGCTACAAGGAGAAGGCGC
TAGCTGAAGCTGCTGCTTTACTGGTGCTCATAAAAAAGCTCAATGCGCTCTGGGAGGGCGACAACGAGGAGAGTTAACGTCCTTACCTGAGCGCACAAAA
TTAATGATATTAATACAAGAAGCTTATGCCAATGGTGCGCGCCTTTACAAGGCTTGTATTGAAGCTGAGCTCAGTAAGCGTACCTATCGACGTTGGTATC
GAGCGGGTGTGGTGCAGGCTGATTTAAGGCCAACAGCGTTTCGGCCAGAGCCCGCCAACAAGCTAAAAGAGCATGAACGAGAGCAGATATTAGCGGTATG
CAATGAGCCTGAATATGCCAGCTTACCTCCCTCACAAATAGTGCCAACACTATTGGATAAGGGGATTTATATTGCATCAGAGGCCAGTTTCTACAGGGTA
TTAGATGCCAATGACCAGCTTAACCATAGAGGTCGCAGCCAAGTTGCAGTTAACCGCAGTAAGCCACTTAGTTACACGGCCGATGGCCCAAACCAAGTGT
GGTCCTGGGACATCACGTATCTGGCCTCAGTAGTTAAAGGTCAGTTTTACTACCTGTACATGTTTGAGGATATTTACAGCCGAAAAATCGTCGGTTATGA
AGTCCATGAACAAGAATGTGGCGAGCGTGCCGCTGAGCTAATCCAACGCAGCATGCTACGGGAACAATGCTTTAAAAAGCCACTGGTGTTGCACTCTGAC
AATGGTGCGCCAATGAAGTCTCTGACGATGAAGGCCAAGCTTGAAGAGCTGGGTGTTACCGCTTCACTGAGCCGGCCTAGAGTGAGTAACGACAACCCCT
ATTCAGAGTCATTATTTAAGACCTTAAAATACCGTCCGCAATGGCCAAAATCAGGTTTTAGCAGTTTAGCCGCAGCAAGGGAATGGGTTGAGAAGTTTGT
GAAGTGGTACAACGATGAGCATAAACATAGCAAGCTTAACTTTGTCTCACCAGGGCAACGTCATGCGTTGCAAGATAGCGCTATCTTAGACAAGCGAAAG
AAAGTTCTCGAAGCGGCTAAGGCAAGAAACCCCAAGCGTTGGTCCAAGGACGTTAGAAATTGTGAGGCGGTTGGCCCAGTAATGCTAAACCCAGATAAGG
CACCCGCAGACGATGTAATAAATGCAGCTTAATATTTAAGCAAAGAGTGACAACTACCTTGAAAAACACCG
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 | |
|---|---|---|---|---|---|
| 501 bp | 166 aa | 77 | 577 | + | No |
Description : First part of the transposase
ORF sequence :
MARYSQERKDSILKKLLPPHNLTVAEVAREEGMAVQTLYHWRDNARKEGRPVPGKTLTTDDWSAEAKLAVIIETAPMSEAEVSQYCREKGLFREQVQQWK
LDCLAGFQTSEVQAKTIKQQAKADKAEIKSLKHELRYKEKALAEAAALLVLIKKLNALWEGDNEES
LDCLAGFQTSEVQAKTIKQQAKADKAEIKSLKHELRYKEKALAEAAALLVLIKKLNALWEGDNEES
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1020 bp | 342 aa | 604 | 1623 | + | No |
Description : Second part of the transposase
ORF sequence :
MILIQEAYANGARLYKACIEAELSKRTYRRWYRAGVVQADLRPTAFRPEPANKLKEHEREQILAVCNEPEYASLPPSQIVPTLLDKGIYIASEASFYRVL
DANDQLNHRGRSQVAVNRSKPLSYTADGPNQVWSWDITYLASVVKGQFYYLYMFEDIYSRKIVGYEVHEQECGERAAELIQRSMLREQCFKKPLVLHSDN
GAPMKSLTMKAKLEELGVTASLSRPRVSNDNPYSESLFKTLKYRPQWPKSGFSSLAAAREWVEKFVKWYNDEHKHSKLNFVSPGQRHALQDSAILDKRKK
VLEAAKARNPKRWSKDVRNCEAVGPVMLNPDKAPADDVINAA
DANDQLNHRGRSQVAVNRSKPLSYTADGPNQVWSWDITYLASVVKGQFYYLYMFEDIYSRKIVGYEVHEQECGERAAELIQRSMLREQCFKKPLVLHSDN
GAPMKSLTMKAKLEELGVTASLSRPRVSNDNPYSESLFKTLKYRPQWPKSGFSSLAAAREWVEKFVKWYNDEHKHSKLNFVSPGQRHALQDSAILDKRKK
VLEAAKARNPKRWSKDVRNCEAVGPVMLNPDKAPADDVINAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1547 bp | 518 aa | 77 | 1623 | + | Yes |
Chemistry : DDE
ORF sequence :
MARYSQERKDSILKKLLPPHNLTVAEVAREEGMAVQTLYHWRDNARKEGRPVPGKTLTTDDWSAEAKLAVIIETAPMSEAEVSQYCREKGLFREQVQQWK
LDCLAGFQTSEVQAKTIKQQAKADKAEIKSLKHELRYKEKALAEAAALLVLIKKAQCALGGRQRGELTSLPERTKLMILIQEAYANGARLYKACIEAELS
KRTYRRWYRAGVVQADLRPTAFRPEPANKLKEHEREQILAVCNEPEYASLPPSQIVPTLLDKGIYIASEASFYRVLDANDQLNHRGRSQVAVNRSKPLSY
TADGPNQVWSWDITYLASVVKGQFYYLYMFEDIYSRKIVGYEVHEQECGERAAELIQRSMLREQCFKKPLVLHSDNGAPMKSLTMKAKLEELGVTASLSR
PRVSNDNPYSESLFKTLKYRPQWPKSGFSSLAAAREWVEKFVKWYNDEHKHSKLNFVSPGQRHALQDSAILDKRKKVLEAAKARNPKRWSKDVRNCEAVG
PVMLNPDKAPADDVINAA
LDCLAGFQTSEVQAKTIKQQAKADKAEIKSLKHELRYKEKALAEAAALLVLIKKAQCALGGRQRGELTSLPERTKLMILIQEAYANGARLYKACIEAELS
KRTYRRWYRAGVVQADLRPTAFRPEPANKLKEHEREQILAVCNEPEYASLPPSQIVPTLLDKGIYIASEASFYRVLDANDQLNHRGRSQVAVNRSKPLSY
TADGPNQVWSWDITYLASVVKGQFYYLYMFEDIYSRKIVGYEVHEQECGERAAELIQRSMLREQCFKKPLVLHSDNGAPMKSLTMKAKLEELGVTASLSR
PRVSNDNPYSESLFKTLKYRPQWPKSGFSSLAAAREWVEKFVKWYNDEHKHSKLNFVSPGQRHALQDSAILDKRKKVLEAAKARNPKRWSKDVRNCEAVG
PVMLNPDKAPADDVINAA
Blast result :
Comments
The ISSde10 transposase is predicted to result from a -1 programmed frameshift (ORF 3). ISSde10 transposase (ORF AB) has 55% identity to IS1240. There are 3 full length copies of ISSde10 encoded in the Shewanella denitrificans genome. An additional 3' fragment is also present.
The ISSde10 ends are not classic for this ISs family.
The ISSde10 ends are not classic for this ISs family.
References
1] Romine, M. F. (2008) Direct submission.