ISSpe3
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009901 | ND | Shewanella pealeana | Shewanella pealeana ATCC 700345 |
DNA section
IS Length : 1302 bp
Ends
IR Length : 19/24
IRL : TGTCCCGTCCTGAGATAAGTTGACACATTGGAGACTTATCTATGAAACCT
IRR : TGTCTAGTCCTAAAATAGGTTGACGGTTTTTATTAAGCCAGTTGGAACTC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TCTTTATATG | TAA | CAGTATTTAC | 3 |
| TAAATTGGTG | AAC | ACATCTTACA | 3 |
| TTAAATTGGC | TTA | TGACTATATC | 3 |
| TTGTTTTATT | TTA | TACCAATCAG | 3 |
| AACATAACAA | CTT | GCTTAAGGAT | 3 |
| TCGATCAAGG | TTA | TTGACTCTTT | 3 |
| TTTATGTCAA | CAC | TTCAGAAATC | 3 |
| TCATGCTTAA | ACA | ACTTATAAAT | 3 |
| TTAGTCTTAA | CTT | CGCAGTTTTT | 3 |
| TGTATTCAAG | GTT | AGCGCTTAAT | 3 |
DNA sequence
TGTCCCGTCCTGAGATAAGTTGACACATTGGAGACTTATCTATGAAACCTTCAGGTTCTATCAGCAATAAACGTACTCAGCGTGATTACACATTAGGCTT
TAAATTAGCCGTCGTCAGCCAAGTAGAAAAAGGCGAGCTGACCTATAAGCAAGCTCAAGACCACTATGGTATCCAAGGAAGAAGTACCGTCCTTACATGG
TTACGAAAGCATGGTAGATTAGACTGGTCCCAGCCTATTGAGCACTCTCCTATGTCTAAATCTAAAGAAACGCCAGCCCAGAAAATTAAGCGATTGGAGA
AGCAAGTCTCTAATCTAGAAATGAAAAACATGATTTATGGCGATATGGTCGAGTTGCTTAAAAACGAATACGGCATCGATTTAGAAAAAAAGTACTTAGC
CGAACGCTCTGGTTCGCCAAAGTAAAAGGCACCATAAAGTTAGCCACAGCGAGTCGGCAGTTCAACTTATCTAGACAAGCAATTTATCAATGGAAACAAC
GCAGAACGGCAAAAGCTGAAACGCTTAAACCTGTGATGAAGATGGTCATGTATTGGCGCCAGTTTATGCCTAGAGTGGGGACGCGCAAGCTCTACCAGCT
CATCAAGCCACAACTGATAGAACAAGGGATAAAGCTCGGTAGAGATGGGTTATTTCAGTATTTGAAGCAACAAAATATGCTGGTAAAACCCAGAAAAAAT
TACACTAAAACGACCAATAGCCATCACTGGCTAAGAAAGTATCCCAACTTACTAAAAGACAGAGCGGTCAAGCGTGTTGAAGAGGTGCTCGTTAGCGATA
TCACCTACGTGAAATCAGATGAGGGGACGCACTATTTGTCTCTGGTAACAGATGCGTACTCAAGAAAGATAATGGGATATGAGTTAAGCCATGAAATGAA
AGCTTGTGACGTGGTCAAAGCATTGAATATGACGATAAAGAATCGTCAGACAACAGGCGATGCCATTCACCACTCAGATAGAGGGATGCAGTACTGCTCA
GCTGAGTACCAGGAGACGTTAGCGGCAAATGGTATTACTCCGTCCATGACAGATGGATATGACTGCTACCAAAATGCACTTGCAGAGCGGGTTAATGGGA
TTTTGAAGCACGAGTTTTTGCTTTATCGCTGCCGTACGATGAAGGAGCTCGATATGTTAATCAAAGAGTCGATAGAGACTTATAACCATTTAAGGCCGCA
TCTTAGTTTAGGGATGAAAACCCCTAATGAAGTACATAAAAAAGCCAGTCGGGAGTTCCAACTGGCTTAATAAAAACCGTCAACCTATTTTAGGACTAGA
CA
TAAATTAGCCGTCGTCAGCCAAGTAGAAAAAGGCGAGCTGACCTATAAGCAAGCTCAAGACCACTATGGTATCCAAGGAAGAAGTACCGTCCTTACATGG
TTACGAAAGCATGGTAGATTAGACTGGTCCCAGCCTATTGAGCACTCTCCTATGTCTAAATCTAAAGAAACGCCAGCCCAGAAAATTAAGCGATTGGAGA
AGCAAGTCTCTAATCTAGAAATGAAAAACATGATTTATGGCGATATGGTCGAGTTGCTTAAAAACGAATACGGCATCGATTTAGAAAAAAAGTACTTAGC
CGAACGCTCTGGTTCGCCAAAGTAAAAGGCACCATAAAGTTAGCCACAGCGAGTCGGCAGTTCAACTTATCTAGACAAGCAATTTATCAATGGAAACAAC
GCAGAACGGCAAAAGCTGAAACGCTTAAACCTGTGATGAAGATGGTCATGTATTGGCGCCAGTTTATGCCTAGAGTGGGGACGCGCAAGCTCTACCAGCT
CATCAAGCCACAACTGATAGAACAAGGGATAAAGCTCGGTAGAGATGGGTTATTTCAGTATTTGAAGCAACAAAATATGCTGGTAAAACCCAGAAAAAAT
TACACTAAAACGACCAATAGCCATCACTGGCTAAGAAAGTATCCCAACTTACTAAAAGACAGAGCGGTCAAGCGTGTTGAAGAGGTGCTCGTTAGCGATA
TCACCTACGTGAAATCAGATGAGGGGACGCACTATTTGTCTCTGGTAACAGATGCGTACTCAAGAAAGATAATGGGATATGAGTTAAGCCATGAAATGAA
AGCTTGTGACGTGGTCAAAGCATTGAATATGACGATAAAGAATCGTCAGACAACAGGCGATGCCATTCACCACTCAGATAGAGGGATGCAGTACTGCTCA
GCTGAGTACCAGGAGACGTTAGCGGCAAATGGTATTACTCCGTCCATGACAGATGGATATGACTGCTACCAAAATGCACTTGCAGAGCGGGTTAATGGGA
TTTTGAAGCACGAGTTTTTGCTTTATCGCTGCCGTACGATGAAGGAGCTCGATATGTTAATCAAAGAGTCGATAGAGACTTATAACCATTTAAGGCCGCA
TCTTAGTTTAGGGATGAAAACCCCTAATGAAGTACATAAAAAAGCCAGTCGGGAGTTCCAACTGGCTTAATAAAAACCGTCAACCTATTTTAGGACTAGA
CA
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 | |
|---|---|---|---|---|---|
| 384 bp | 127 aa | 42 | 425 | + | No |
Description : First part of the transposase
ORF sequence :
MKPSGSISNKRTQRDYTLGFKLAVVSQVEKGELTYKQAQDHYGIQGRSTVLTWLRKHGRLDWSQPIEHSPMSKSKETPAQKIKRLEKQVSNLEMKNMIYG
DMVELLKNEYGIDLEKKYLAERSGSPK
DMVELLKNEYGIDLEKKYLAERSGSPK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 909 bp | 302 aa | 362 | 1270 | + | No |
Description : Second part of the transposase
ORF sequence :
KRIRHRFRKKVLSRTLWFAKVKGTIKLATASRQFNLSRQAIYQWKQRRTAKAETLKPVMKMVMYWRQFMPRVGTRKLYQLIKPQLIEQGIKLGRDGLFQY
LKQQNMLVKPRKNYTKTTNSHHWLRKYPNLLKDRAVKRVEEVLVSDITYVKSDEGTHYLSLVTDAYSRKIMGYELSHEMKACDVVKALNMTIKNRQTTGD
AIHHSDRGMQYCSAEYQETLAANGITPSMTDGYDCYQNALAERVNGILKHEFLLYRCRTMKELDMLIKESIETYNHLRPHLSLGMKTPNEVHKKASREFQ
LA
LKQQNMLVKPRKNYTKTTNSHHWLRKYPNLLKDRAVKRVEEVLVSDITYVKSDEGTHYLSLVTDAYSRKIMGYELSHEMKACDVVKALNMTIKNRQTTGD
AIHHSDRGMQYCSAEYQETLAANGITPSMTDGYDCYQNALAERVNGILKHEFLLYRCRTMKELDMLIKESIETYNHLRPHLSLGMKTPNEVHKKASREFQ
LA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1229 bp | 409 aa | 42 | 1270 | + | Yes |
Chemistry : DDE
ORF sequence :
MKPSGSISNKRTQRDYTLGFKLAVVSQVEKGELTYKQAQDHYGIQGRSTVLTWLRKHGRLDWSQPIEHSPMSKSKETPAQKIKRLEKQVSNLEMKNMIYG
DMVELLKNEYGIDLEKKVLSRTLWFAKVKGTIKLATASRQFNLSRQAIYQWKQRRTAKAETLKPVMKMVMYWRQFMPRVGTRKLYQLIKPQLIEQGIKLG
RDGLFQYLKQQNMLVKPRKNYTKTTNSHHWLRKYPNLLKDRAVKRVEEVLVSDITYVKSDEGTHYLSLVTDAYSRKIMGYELSHEMKACDVVKALNMTIK
NRQTTGDAIHHSDRGMQYCSAEYQETLAANGITPSMTDGYDCYQNALAERVNGILKHEFLLYRCRTMKELDMLIKESIETYNHLRPHLSLGMKTPNEVHK
KASREFQLA
DMVELLKNEYGIDLEKKVLSRTLWFAKVKGTIKLATASRQFNLSRQAIYQWKQRRTAKAETLKPVMKMVMYWRQFMPRVGTRKLYQLIKPQLIEQGIKLG
RDGLFQYLKQQNMLVKPRKNYTKTTNSHHWLRKYPNLLKDRAVKRVEEVLVSDITYVKSDEGTHYLSLVTDAYSRKIMGYELSHEMKACDVVKALNMTIK
NRQTTGDAIHHSDRGMQYCSAEYQETLAANGITPSMTDGYDCYQNALAERVNGILKHEFLLYRCRTMKELDMLIKESIETYNHLRPHLSLGMKTPNEVHK
KASREFQLA
Blast result :
Comments
There are 10 copies of ISSpe3 encoded in the Shewanella pealeana genome.
The transposase encoded by it has 89% identity to that encoded by ISShfr4.
The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
The transposase encoded by it has 89% identity to that encoded by ISShfr4.
The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Romine, M. F. (2008). Direct submission.