ISKol9
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_012785 | ND | Kosmotoga olearia | Kosmotoga olearia TBF 19.5.1 |
DNA section
IS Length : 1416 bp
Ends
IR Length : 11/17
IRL : CGTAATCACCCCCTAAAGAAATAGGACAAGAGATAACGAAGTGATAGTAT
IRR : CGGTCTGACCCCCAATAATGAGACACGGGTTAACGAGATCAAGCTTTAAC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTCGCAGTGT | CACG | AATCCCTTCG | 4 |
| GAAGCAGTTC | GAGA | CAACCACGAA | 4 |
| TGCGCAGTAG | CTTT | CTCCAATCTA | 4 |
| GAGTTGCCTC | CGTTGTAGGT | 0 |
DNA sequence
CGTAATCACCCCCTAAAGAAATAGGACAAGAGATAACGAAGTGATAGTATGAAAGAAGAGGGGGCGAAGGGATGAGAGGCAGAGAACAATATTCAATGGA
ATTGAAGCTAAAAGTGGTAAAGGAATACGAAGAGGGCCACAAAAACACAAGAGAAATCAGGGAAGAATACGGGATACCGGATTCTACATTATGGGGTTGG
ATAAACAAATATAGAGCGGAGGGAGAAAGTGCTTTTGAACCGAAACTCAGAGCTGGAGATTTCATTGTTGATCCAACGAAGATACCACCTGTTCTGTACA
AAGAGATAGGGCTTGACAAGATAAAGAAAGACCCAAAAGAGCTAAAAGGGGTTCTCAACGAAATCGAGAAATACAAACTCATAATAGCAGAGAAAGAATT
GGAAATAAGGTTGCTAAAAGAAGCTCTAAAAAAAACTGGAAAAGGCTAGCAGTTGAACTTTTCGCTGAAACATATATGGGTTATGGTTTTTCAACCTCTT
ATCTTTTGAGAATCTTTGGAATAACCAGAAGCAGTTACTATCGCAGGAAGAAACCCGTGTTCTTTCTCAAAAAGACAAAACCAGGTAGAAGGCGCAATTA
CTGTCTAAAGACAAACGGTGAAAAGTTCGAAGATAAAGAGCTTGAAAAACTACTCAAAGGCATATACAGCAGAGTGAATCCATATGAACCTGAGTATTAT
CTGAAAGTATTAGGAAGCAAGAAGCTCAGCAAGTATTTTCTGAATGAATTTGGGATAATAGTGAACCACAAGAAAGTACACAGAATGAGAAAGAAGCTGG
GATATGTCAGGAAATACTGGCCGAAACAGCACCATCCTGTTAGGCGCTCAACCCAGCATGAGATAGACAGGACAGGAATACTGTGGGAAGCAGATATTAA
GTACATAACCACAATACAGGAAGGGAATATAGCCTTATTGGACATAATAGATGTATATTCAAGGGAAATAGTGGGTTCATATCTTGGGAAGAGTTGCAAG
TGCAAAGATTTTACCCGAACACTGGGAAGGGCAATGCTTTACCAGGAAACGGTACCTCAGTTGGTCCGTACGGATAATGGAAGCCTGTTTACAGCTAATT
ACACCCGGGAATATTTTGAAAAGAACGAGATAATCCAGGAATTTGGGATAAAGCACCACCCTGATTCCCAGGCCTTTATTGAATCACAGCATTCGAATGT
GCAAAGGGAATTTGTGGCTATGAATGTGTTTGAGAGAGCGGAAGACGTTTACCGGAAATACCAGGTGTACATGGATTTCTATCATAATCTCAGACCACAT
GGTTCTTTGAAATACATGACACCACAAGCCTTTAAGAAACACTGTAGCATTTCCATGATTCAGTCTGTTAAAGCTTGATCTCGTTAACCCGTGTCTCATT
ATTGGGGGTCAGACCG
ATTGAAGCTAAAAGTGGTAAAGGAATACGAAGAGGGCCACAAAAACACAAGAGAAATCAGGGAAGAATACGGGATACCGGATTCTACATTATGGGGTTGG
ATAAACAAATATAGAGCGGAGGGAGAAAGTGCTTTTGAACCGAAACTCAGAGCTGGAGATTTCATTGTTGATCCAACGAAGATACCACCTGTTCTGTACA
AAGAGATAGGGCTTGACAAGATAAAGAAAGACCCAAAAGAGCTAAAAGGGGTTCTCAACGAAATCGAGAAATACAAACTCATAATAGCAGAGAAAGAATT
GGAAATAAGGTTGCTAAAAGAAGCTCTAAAAAAAACTGGAAAAGGCTAGCAGTTGAACTTTTCGCTGAAACATATATGGGTTATGGTTTTTCAACCTCTT
ATCTTTTGAGAATCTTTGGAATAACCAGAAGCAGTTACTATCGCAGGAAGAAACCCGTGTTCTTTCTCAAAAAGACAAAACCAGGTAGAAGGCGCAATTA
CTGTCTAAAGACAAACGGTGAAAAGTTCGAAGATAAAGAGCTTGAAAAACTACTCAAAGGCATATACAGCAGAGTGAATCCATATGAACCTGAGTATTAT
CTGAAAGTATTAGGAAGCAAGAAGCTCAGCAAGTATTTTCTGAATGAATTTGGGATAATAGTGAACCACAAGAAAGTACACAGAATGAGAAAGAAGCTGG
GATATGTCAGGAAATACTGGCCGAAACAGCACCATCCTGTTAGGCGCTCAACCCAGCATGAGATAGACAGGACAGGAATACTGTGGGAAGCAGATATTAA
GTACATAACCACAATACAGGAAGGGAATATAGCCTTATTGGACATAATAGATGTATATTCAAGGGAAATAGTGGGTTCATATCTTGGGAAGAGTTGCAAG
TGCAAAGATTTTACCCGAACACTGGGAAGGGCAATGCTTTACCAGGAAACGGTACCTCAGTTGGTCCGTACGGATAATGGAAGCCTGTTTACAGCTAATT
ACACCCGGGAATATTTTGAAAAGAACGAGATAATCCAGGAATTTGGGATAAAGCACCACCCTGATTCCCAGGCCTTTATTGAATCACAGCATTCGAATGT
GCAAAGGGAATTTGTGGCTATGAATGTGTTTGAGAGAGCGGAAGACGTTTACCGGAAATACCAGGTGTACATGGATTTCTATCATAATCTCAGACCACAT
GGTTCTTTGAAATACATGACACCACAAGCCTTTAAGAAACACTGTAGCATTTCCATGATTCAGTCTGTTAAAGCTTGATCTCGTTAACCCGTGTCTCATT
ATTGGGGGTCAGACCG
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 | |
|---|---|---|---|---|---|
| 378 bp | 125 aa | 72 | 449 | + | No |
Description : First part of the transposase
ORF sequence :
MRGREQYSMELKLKVVKEYEEGHKNTREIREEYGIPDSTLWGWINKYRAEGESAFEPKLRAGDFIVDPTKIPPVLYKEIGLDKIKKDPKELKGVLNEIEK
YKLIIAEKELEIRLLKEALKKTGKG
YKLIIAEKELEIRLLKEALKKTGKG
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1062 bp | 353 aa | 317 | 1378 | + | No |
Description : Second part of the transposase
ORF sequence :
QDKERPKRAKRGSQRNREIQTHNSRERIGNKVAKRSSKKNWKRLAVELFAETYMGYGFSTSYLLRIFGITRSSYYRRKKPVFFLKKTKPGRRRNYCLKTN
GEKFEDKELEKLLKGIYSRVNPYEPEYYLKVLGSKKLSKYFLNEFGIIVNHKKVHRMRKKLGYVRKYWPKQHHPVRRSTQHEIDRTGILWEADIKYITTI
QEGNIALLDIIDVYSREIVGSYLGKSCKCKDFTRTLGRAMLYQETVPQLVRTDNGSLFTANYTREYFEKNEIIQEFGIKHHPDSQAFIESQHSNVQREFV
AMNVFERAEDVYRKYQVYMDFYHNLRPHGSLKYMTPQAFKKHCSISMIQSVKA
GEKFEDKELEKLLKGIYSRVNPYEPEYYLKVLGSKKLSKYFLNEFGIIVNHKKVHRMRKKLGYVRKYWPKQHHPVRRSTQHEIDRTGILWEADIKYITTI
QEGNIALLDIIDVYSREIVGSYLGKSCKCKDFTRTLGRAMLYQETVPQLVRTDNGSLFTANYTREYFEKNEIIQEFGIKHHPDSQAFIESQHSNVQREFV
AMNVFERAEDVYRKYQVYMDFYHNLRPHGSLKYMTPQAFKKHCSISMIQSVKA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1307 bp | 435 aa | 72 | 1378 | + | Yes |
Chemistry : DDE
ORF sequence :
MRGREQYSMELKLKVVKEYEEGHKNTREIREEYGIPDSTLWGWINKYRAEGESAFEPKLRAGDFIVDPTKIPPVLYKEIGLDKIKKDPKELKGVLNEIEK
YKLIIAEKELEIRLLKEALKKNWKRLAVELFAETYMGYGFSTSYLLRIFGITRSSYYRRKKPVFFLKKTKPGRRRNYCLKTNGEKFEDKELEKLLKGIYS
RVNPYEPEYYLKVLGSKKLSKYFLNEFGIIVNHKKVHRMRKKLGYVRKYWPKQHHPVRRSTQHEIDRTGILWEADIKYITTIQEGNIALLDIIDVYSREI
VGSYLGKSCKCKDFTRTLGRAMLYQETVPQLVRTDNGSLFTANYTREYFEKNEIIQEFGIKHHPDSQAFIESQHSNVQREFVAMNVFERAEDVYRKYQVY
MDFYHNLRPHGSLKYMTPQAFKKHCSISMIQSVKA
YKLIIAEKELEIRLLKEALKKNWKRLAVELFAETYMGYGFSTSYLLRIFGITRSSYYRRKKPVFFLKKTKPGRRRNYCLKTNGEKFEDKELEKLLKGIYS
RVNPYEPEYYLKVLGSKKLSKYFLNEFGIIVNHKKVHRMRKKLGYVRKYWPKQHHPVRRSTQHEIDRTGILWEADIKYITTIQEGNIALLDIIDVYSREI
VGSYLGKSCKCKDFTRTLGRAMLYQETVPQLVRTDNGSLFTANYTREYFEKNEIIQEFGIKHHPDSQAFIESQHSNVQREFVAMNVFERAEDVYRKYQVY
MDFYHNLRPHGSLKYMTPQAFKKHCSISMIQSVKA
Blast result :
Comments
ISKol9 is 40% aa similar to ISIBa2. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The ends of this sequence are not typical of the IS3 family.
The ends of this sequence are not typical of the IS3 family.
References
1] ISfinder annotation (2009)
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G. and Noll,K. (2009) Direct submission GenBank.
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G. and Noll,K. (2009) Direct submission GenBank.