ISPto4
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NZ_AAPR01000005 | ND | Psychroflexus torquis | Psychroflexus torquis ATCC |
DNA section
IS Length : 1253 bp
Ends
IR Length : 18/31
IRL : TGGAGTGTCTACCTTTGATGTGACGATTTTTATGAGTTTATAAATTTTAT
IRR : TGGAATAGCTAGTAAATTTGTGACTAATTTTTTAAGCTATTTTTTTAATA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TACAATGTAA | ATC | TCTTAGAAAT | 3 |
DNA sequence
TGGAGTGTCTACCTTTGATGTGACGATTTTTATGAGTTTATAAATTTTATATTTGAGTTATGGTAAAAAAGTATGACAATGAATTTAAAGTTATGATCGT
CGAACTATTAAATTCTGGTATTGAGACAAAACAAGTTAGTGAGGATTATGATTTAAGCCTTAATATGATTGGTCGTTGGAAACGAGAATACAAGCTCAAA
TCTGGAGACTTTTCAAAGAAGAAGGAGTTATCTATTGAAGCTCAAGAGCTCAAAGCATTAAAGAAAGAGTTAAAGAATGTAACGATGGAACGTGACATCT
TAAAAAAGGCGGTGAGCATCTTCTCCAAGAGCGACTGATAAGATATCAATTCATTTTAAAGAATGTTGATATGTATCCAGTAGAGAAGATGTGCAAATCC
ATGAGAGTTAGCAAGAACGCTTATTATCATTGGTTTAAAAACAAAGACATTGTAGTTTTAAAAACAGCGACAGCGGTTCTAAAAGAGAGGATCAAAATTA
TTTTTGAGCAAAGTAGAGAAATTTATGGTAGCTCTAGGGTTCAAAAAATGTTAGAACGAGAAGGCTTGGTTTACTCTCGTTCCTACATCGGTTTACTGAT
GAAAGATATGGGGCTAAGAAGTGTTCTAAAGAGAAAATTCGTTCTTACAACAAACTCTAATCATCCATATTTAACTAAGGAAAATGAGTTAAATAGAGAG
TTCTCTAGTTTTAAATTAGGGGAGAAATGGGTGTCTGACATCACTTATATTCGAGTTAATGATGATTGGAATTACTTAACAACCATCATAGATTTAGCAG
ATAGAAAGGTGGTTGGATGGTCTTTAAGTGAAGATATGACTACTCAAAATACAGTTCTGAAGGCTTGGATTGATGCTCGAAAAACAAGAAGTATTCATAA
AGAATTTATTTTTCATTCAGATAGAGGTGTGCAATATGCTTCGAATAAAATGACTAACATTTGCAATTTTAACCTTAAAATAACTCAAAGTATGAGTAGG
AAGGGGAATTGCTGGGACAATGCTGTAGCTGAAAGCTTTTTTAAAACAATCAAATACGAATGGCTATATAGATTTAAATTTACCTCATATAATCAATTAT
ATGAGTCTATTGATAGCTACATTCATTGGTATAATACCGAAAGATTACATTCTAGTTTAGGATATTCCTCACCTCTAGAAATGGAAATAAAATTGAGAGG
ATTTATTAAAAAAATAGCTTAAAAAATTAGTCACAAATTTACTAGCTATTCCA
CGAACTATTAAATTCTGGTATTGAGACAAAACAAGTTAGTGAGGATTATGATTTAAGCCTTAATATGATTGGTCGTTGGAAACGAGAATACAAGCTCAAA
TCTGGAGACTTTTCAAAGAAGAAGGAGTTATCTATTGAAGCTCAAGAGCTCAAAGCATTAAAGAAAGAGTTAAAGAATGTAACGATGGAACGTGACATCT
TAAAAAAGGCGGTGAGCATCTTCTCCAAGAGCGACTGATAAGATATCAATTCATTTTAAAGAATGTTGATATGTATCCAGTAGAGAAGATGTGCAAATCC
ATGAGAGTTAGCAAGAACGCTTATTATCATTGGTTTAAAAACAAAGACATTGTAGTTTTAAAAACAGCGACAGCGGTTCTAAAAGAGAGGATCAAAATTA
TTTTTGAGCAAAGTAGAGAAATTTATGGTAGCTCTAGGGTTCAAAAAATGTTAGAACGAGAAGGCTTGGTTTACTCTCGTTCCTACATCGGTTTACTGAT
GAAAGATATGGGGCTAAGAAGTGTTCTAAAGAGAAAATTCGTTCTTACAACAAACTCTAATCATCCATATTTAACTAAGGAAAATGAGTTAAATAGAGAG
TTCTCTAGTTTTAAATTAGGGGAGAAATGGGTGTCTGACATCACTTATATTCGAGTTAATGATGATTGGAATTACTTAACAACCATCATAGATTTAGCAG
ATAGAAAGGTGGTTGGATGGTCTTTAAGTGAAGATATGACTACTCAAAATACAGTTCTGAAGGCTTGGATTGATGCTCGAAAAACAAGAAGTATTCATAA
AGAATTTATTTTTCATTCAGATAGAGGTGTGCAATATGCTTCGAATAAAATGACTAACATTTGCAATTTTAACCTTAAAATAACTCAAAGTATGAGTAGG
AAGGGGAATTGCTGGGACAATGCTGTAGCTGAAAGCTTTTTTAAAACAATCAAATACGAATGGCTATATAGATTTAAATTTACCTCATATAATCAATTAT
ATGAGTCTATTGATAGCTACATTCATTGGTATAATACCGAAAGATTACATTCTAGTTTAGGATATTCCTCACCTCTAGAAATGGAAATAAAATTGAGAGG
ATTTATTAAAAAAATAGCTTAAAAAATTAGTCACAAATTTACTAGCTATTCCA
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 | |
|---|---|---|---|---|---|
| 279 bp | 92 aa | 61 | 339 | + | No |
Description : First part of the transposase
ORF sequence :
MVKKYDNEFKVMIVELLNSGIETKQVSEDYDLSLNMIGRWKREYKLKSGDFSKKKELSIEAQELKALKKELKNVTMERDILKKAVSIFSKSD
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 927 bp | 308 aa | 296 | 1222 | + | No |
Description : Second part of the transposase
ORF sequence :
HLKKGGEHLLQERLIRYQFILKNVDMYPVEKMCKSMRVSKNAYYHWFKNKDIVVLKTATAVLKERIKIIFEQSREIYGSSRVQKMLEREGLVYSRSYIGL
LMKDMGLRSVLKRKFVLTTNSNHPYLTKENELNREFSSFKLGEKWVSDITYIRVNDDWNYLTTIIDLADRKVVGWSLSEDMTTQNTVLKAWIDARKTRSI
HKEFIFHSDRGVQYASNKMTNICNFNLKITQSMSRKGNCWDNAVAESFFKTIKYEWLYRFKFTSYNQLYESIDSYIHWYNTERLHSSLGYSSPLEMEIKL
RGFIKKIA
LMKDMGLRSVLKRKFVLTTNSNHPYLTKENELNREFSSFKLGEKWVSDITYIRVNDDWNYLTTIIDLADRKVVGWSLSEDMTTQNTVLKAWIDARKTRSI
HKEFIFHSDRGVQYASNKMTNICNFNLKITQSMSRKGNCWDNAVAESFFKTIKYEWLYRFKFTSYNQLYESIDSYIHWYNTERLHSSLGYSSPLEMEIKL
RGFIKKIA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1162 bp | 387 aa | 61 | 1222 | + | Yes |
Chemistry : DDE
ORF sequence :
MVKKYDNEFKVMIVELLNSGIETKQVSEDYDLSLNMIGRWKREYKLKSGDFSKKKELSIEAQELKALKKELKNVTMERDILKKGGEHLLQERLIRYQFIL
KNVDMYPVEKMCKSMRVSKNAYYHWFKNKDIVVLKTATAVLKERIKIIFEQSREIYGSSRVQKMLEREGLVYSRSYIGLLMKDMGLRSVLKRKFVLTTNS
NHPYLTKENELNREFSSFKLGEKWVSDITYIRVNDDWNYLTTIIDLADRKVVGWSLSEDMTTQNTVLKAWIDARKTRSIHKEFIFHSDRGVQYASNKMTN
ICNFNLKITQSMSRKGNCWDNAVAESFFKTIKYEWLYRFKFTSYNQLYESIDSYIHWYNTERLHSSLGYSSPLEMEIKLRGFIKKIA
KNVDMYPVEKMCKSMRVSKNAYYHWFKNKDIVVLKTATAVLKERIKIIFEQSREIYGSSRVQKMLEREGLVYSRSYIGLLMKDMGLRSVLKRKFVLTTNS
NHPYLTKENELNREFSSFKLGEKWVSDITYIRVNDDWNYLTTIIDLADRKVVGWSLSEDMTTQNTVLKAWIDARKTRSIHKEFIFHSDRGVQYASNKMTN
ICNFNLKITQSMSRKGNCWDNAVAESFFKTIKYEWLYRFKFTSYNQLYESIDSYIHWYNTERLHSSLGYSSPLEMEIKLRGFIKKIA
Blast result :
Comments
Genome in progress.
ISPto4 is 54 % (ORFA) aa similar to ISCb3 and 59% (ORFB) aa similar to ISCce3. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
ISPto4 is 54 % (ORFA) aa similar to ISCb3 and 59% (ORFB) aa similar to ISCce3. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Bowman,J., Ferriera,S., Johnson,J., Kravitz,S., Halpern,A., Remington,K., Beeson,K., Tran,B., Rogers,Y.-H., Friedman,R. And Venter,J.C. (2006) Direct submission GenBank.