ISPa39
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| ND | Pseudomonas aeruginosa | Pseudomonas aeruginosa DK2 |
DNA section
IS Length : 1254 bp
Ends
IR Length : 21/33
IRL : TGACCTGCCCCCCGTTTTCCGGGCCAACCTGATCTTAGTAGAGTCCGTCT
IRR : TGACCTGCCCCCTTTCTCAGGGCCACTAGCTACTTAGTAGAGTCCAGGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCTTCGACGT | CG | GAATCTGCAC | 2 |
DNA sequence
TGACCTGCCCCCCGTTTTCCGGGCCAACCTGATCTTAGTAGAGTCCGTCTCACAAGAGGACGGACATGAAGAAGCGATACACCGAAGAGCAGATCATCGG
CTTCCTGAAGCAGGCGGCCGCCGGCACGCCGGTCAAGGAGCTTTGCCGCAAGCACGGCTTCAGTGACGCGTCGTTCTACCTGTGGCGGCGCAAGTTCGGC
GGCATGGATGTGCCCGACGCCAAGCGCCTGAAGGCACTGGAAGCGGAGAACGCGCGGCTCAAAAAGCTGTTGGCCGAGTCGATGTTGGACAACGAAGCGC
TGAGGATCGTGGCGCGGGGAAAATACTGAGCCCGCCGACGCGACGGGCTGCCGTCGCGGACGTGCGGGCGAAGCTGGGCCTGTCGGAGCGGCGGGCCTGC
CGGGCACTGGGCTTGTCACGCAGCGTGTTGCACTACCAGCCGCGCATGGCGAACGCGCCGTTGCAGGCCAGGCTCGTTGCGTTGGCGGGCGAACGTCGCC
GGTTCGGCTACCGACGGCTGCACATCCTGCTGGAACGGGAGGGCTGGATCGCCAACCACAAGCGAATCTACCGGCTGTACCGCAACGCTGGCCTGGCGGT
GCGCAAGCGCCGCAAGCGCGATCGCGTGGCCGTCGAGCGCCGTCCGCTGCAGCTGCCGTCGGGGCCCAACCACACCTGGTCGATGGACTTCGTCTTCGAC
GCCCTGGCCAACGGGCGCCCGATCAAGTGCCTGACGGTGGTGGACGATTGCACCAAGGAAGCGGTGGAAATCGCCGTCGGCCGGAGGATAAATGGCCAGA
ACGTGGCCGACATCCTGGATGCGGTATGCCGTTTCCGCGGCTACCCCGCGGCGATCAGGACCGACCAGGGACCCGAGTTTACCGGCCGGGCGCTGGACCA
GTGGGCGACCGCCAACGGCGTGACGCTTGTGCTGACCCAGCCAGGGAAACCCACGCAGAACGCCTATGTGGAGAGCTTCAACGGCAAGTTCCGGGACGAA
TGCTTGAACGAAAACTGGTTTATCTCGCTCGAGCACGCACGGGCGGTAATCGCCATCTGGCGCAAGGACTACAACGAGGTGCGTCCGCACAGCTCACTGC
CCAAATGCACGCCTGCCGAGTTCGCCGCCGCGCTGCGCAACGAAGGTGCCTTGACTGGTTCGACCGCTGATCGAAACCTGACCCACCGGAGCGGTATGCT
CCCCAACCTGGACTCTACTAAGTAGCTAGTGGCCCTGAGAAAGGGGGCAGGTCA
CTTCCTGAAGCAGGCGGCCGCCGGCACGCCGGTCAAGGAGCTTTGCCGCAAGCACGGCTTCAGTGACGCGTCGTTCTACCTGTGGCGGCGCAAGTTCGGC
GGCATGGATGTGCCCGACGCCAAGCGCCTGAAGGCACTGGAAGCGGAGAACGCGCGGCTCAAAAAGCTGTTGGCCGAGTCGATGTTGGACAACGAAGCGC
TGAGGATCGTGGCGCGGGGAAAATACTGAGCCCGCCGACGCGACGGGCTGCCGTCGCGGACGTGCGGGCGAAGCTGGGCCTGTCGGAGCGGCGGGCCTGC
CGGGCACTGGGCTTGTCACGCAGCGTGTTGCACTACCAGCCGCGCATGGCGAACGCGCCGTTGCAGGCCAGGCTCGTTGCGTTGGCGGGCGAACGTCGCC
GGTTCGGCTACCGACGGCTGCACATCCTGCTGGAACGGGAGGGCTGGATCGCCAACCACAAGCGAATCTACCGGCTGTACCGCAACGCTGGCCTGGCGGT
GCGCAAGCGCCGCAAGCGCGATCGCGTGGCCGTCGAGCGCCGTCCGCTGCAGCTGCCGTCGGGGCCCAACCACACCTGGTCGATGGACTTCGTCTTCGAC
GCCCTGGCCAACGGGCGCCCGATCAAGTGCCTGACGGTGGTGGACGATTGCACCAAGGAAGCGGTGGAAATCGCCGTCGGCCGGAGGATAAATGGCCAGA
ACGTGGCCGACATCCTGGATGCGGTATGCCGTTTCCGCGGCTACCCCGCGGCGATCAGGACCGACCAGGGACCCGAGTTTACCGGCCGGGCGCTGGACCA
GTGGGCGACCGCCAACGGCGTGACGCTTGTGCTGACCCAGCCAGGGAAACCCACGCAGAACGCCTATGTGGAGAGCTTCAACGGCAAGTTCCGGGACGAA
TGCTTGAACGAAAACTGGTTTATCTCGCTCGAGCACGCACGGGCGGTAATCGCCATCTGGCGCAAGGACTACAACGAGGTGCGTCCGCACAGCTCACTGC
CCAAATGCACGCCTGCCGAGTTCGCCGCCGCGCTGCGCAACGAAGGTGCCTTGACTGGTTCGACCGCTGATCGAAACCTGACCCACCGGAGCGGTATGCT
CCCCAACCTGGACTCTACTAAGTAGCTAGTGGCCCTGAGAAAGGGGGCAGGTCA
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 | |
|---|---|---|---|---|---|
| 264 bp | 87 aa | 66 | 329 | + | No |
Description : First part of the transposase
ORF sequence :
MKKRYTEEQIIGFLKQAAAGTPVKELCRKHGFSDASFYLWRRKFGGMDVPDAKRLKALEAENARLKKLLAESMLDNEALRIVARGKY
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1059 bp | 352 aa | 167 | 1225 | + | No |
Description : Second part of the transposase
ORF sequence :
RVVLPVAAQVRRHGCARRQAPEGTGSGERAAQKAVGRVDVGQRSAEDRGAGKILSPPTRRAAVADVRAKLGLSERRACRALGLSRSVLHYQPRMANAPLQ
ARLVALAGERRRFGYRRLHILLEREGWIANHKRIYRLYRNAGLAVRKRRKRDRVAVERRPLQLPSGPNHTWSMDFVFDALANGRPIKCLTVVDDCTKEAV
EIAVGRRINGQNVADILDAVCRFRGYPAAIRTDQGPEFTGRALDQWATANGVTLVLTQPGKPTQNAYVESFNGKFRDECLNENWFISLEHARAVIAIWRK
DYNEVRPHSSLPKCTPAEFAAALRNEGALTGSTADRNLTHRSGMLPNLDSTK
ARLVALAGERRRFGYRRLHILLEREGWIANHKRIYRLYRNAGLAVRKRRKRDRVAVERRPLQLPSGPNHTWSMDFVFDALANGRPIKCLTVVDDCTKEAV
EIAVGRRINGQNVADILDAVCRFRGYPAAIRTDQGPEFTGRALDQWATANGVTLVLTQPGKPTQNAYVESFNGKFRDECLNENWFISLEHARAVIAIWRK
DYNEVRPHSSLPKCTPAEFAAALRNEGALTGSTADRNLTHRSGMLPNLDSTK
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1160 bp | 386 aa | 66 | 1225 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKRYTEEQIIGFLKQAAAGTPVKELCRKHGFSDASFYLWRRKFGGMDVPDAKRLKALEAENARLKKLLAESMLDNEALRIVARGKILSPPTRRAAVADV
RAKLGLSERRACRALGLSRSVLHYQPRMANAPLQARLVALAGERRRFGYRRLHILLEREGWIANHKRIYRLYRNAGLAVRKRRKRDRVAVERRPLQLPSG
PNHTWSMDFVFDALANGRPIKCLTVVDDCTKEAVEIAVGRRINGQNVADILDAVCRFRGYPAAIRTDQGPEFTGRALDQWATANGVTLVLTQPGKPTQNA
YVESFNGKFRDECLNENWFISLEHARAVIAIWRKDYNEVRPHSSLPKCTPAEFAAALRNEGALTGSTADRNLTHRSGMLPNLDSTK
RAKLGLSERRACRALGLSRSVLHYQPRMANAPLQARLVALAGERRRFGYRRLHILLEREGWIANHKRIYRLYRNAGLAVRKRRKRDRVAVERRPLQLPSG
PNHTWSMDFVFDALANGRPIKCLTVVDDCTKEAVEIAVGRRINGQNVADILDAVCRFRGYPAAIRTDQGPEFTGRALDQWATANGVTLVLTQPGKPTQNA
YVESFNGKFRDECLNENWFISLEHARAVIAIWRKDYNEVRPHSSLPKCTPAEFAAALRNEGALTGSTADRNLTHRSGMLPNLDSTK
Blast result :
Comments
ISPa39 is 80% aa similar to IS407.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] ISfinder annotation (2011).
2] Martin Holm Rau (2011) Direct submission to ISfinder.
2] Martin Holm Rau (2011) Direct submission to ISfinder.