ISPpu22
- Family IS3
- Group IS51
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NZ_AAXR01000001 | ND | Pseudomonas putida | Pseudomonas putida GB-1 |
DNA section
IS Length : 1232 bp
Ends
IR Length : 29/45
IRL : TGAATCGCCCCTGGTTTCGTAGACACCTCCAAGCCTCATAATGAGGCCCA
IRR : TGAATCGCCCCTGGTTTCCTAGACACTCTCCAAGCTCAGAAAATAGCGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GGTTCGACAC | ATG | GCCTGGCTCA | 3 |
DNA sequence
TGAATCGCCCCTGGTTTCGTAGACACCTCCAAGCCTCATAATGAGGCCCAAATAGGAGGTGTCATGAGTCGTCAGCGTTACCCCGAAGAATTCAAAATCG
AAGCGGTCAAGCAAGTGACCGAGAAAGGCAAGACTGTCGCCGATGTTGCCCAGCGCCTGGGCATGTCTGTTCACAGCCTCTACGCCTGGATCAAGCTCTA
CAGCAAACCCCAAGAGCAGCGTCAGCAAGACGATGAGCAGCAAGCCGAACTGCGCAAGCTTCGCGCAGAACTCAAGCGCGTGACTGAAGAGCGAGACATC
TTAAAAAAGGCCGCCGCGTACTTTGCCAAGGAGTGCAACTGAAGTACGCCTTCATCAAGAAGCACTCGACGGATCACCCGGTGCGGCGCCTATGCCAAAC
CCTAAAGGTGCATCCCAGCGGCTACTACGCCTGGCTGACCGAGCCTCAATCTGCCCGAGCAAAAGAAGATCATCGTCTGCTTGGCTTGATCAAACATGCT
TGGCTCGAAAGCGGAGGTGTGTACGGCTACCGCAAAATTCATGATGACCTGCGTGAGCTGGGAGAGACATGCGGGCGCAATCGAGTCGGACGCTTGATGC
AGGCAGAGGGGTTGCGTTCGCAAACGGGCTATCGGCGGCGTCCAGGGTTTTACGGTGGAAAGCCAACAGTGGCCTCTCCCAACCATCTCGCGCGGCAGTT
CAAAGTCAGTGAGCCGAATAAGGTCTGGGTAACCGATATCACTTACATCCGCACCTATGAAGGATGGCTGTACCTAGCGGTAGTCCTGGATCTGTTTTCC
CGCCAAGTGATTGGCTGGTCAATGAAGCCCCGCATGTGCAGCGACCTGGCGCTTGACGCGATGTTGATGGCCGTGTGGCGCCGCAAACCACGGCAGCAAG
TGATGATCCATTCAGACCAAGGCAGTCAATTCAGTAGCTCAGACTGGCAAAGCTTCTTGAAGGCCAACAATATAATCAGCAGCATGAGTCGGCGGGGAAA
TTGCCACGACAATGCCGTAGCCGAAAGCTTTTTCCAGCTTTTGAAGCGGGAGCGAATCCGACGAAAAATCTACGCAACACGTGACGAAGCCCGAAGTGAT
ATTTTCGATTACATTGAAATGTTTTATAACCCAAGGCGCAGACACAGCAGTGCTATGCAGCTGTCGCCAGTAGAGTATGAGAAACGCTATTTTCTGAGCT
TGGAGAGTGTCTAGGAAACCAGGGGCGATTCA
AAGCGGTCAAGCAAGTGACCGAGAAAGGCAAGACTGTCGCCGATGTTGCCCAGCGCCTGGGCATGTCTGTTCACAGCCTCTACGCCTGGATCAAGCTCTA
CAGCAAACCCCAAGAGCAGCGTCAGCAAGACGATGAGCAGCAAGCCGAACTGCGCAAGCTTCGCGCAGAACTCAAGCGCGTGACTGAAGAGCGAGACATC
TTAAAAAAGGCCGCCGCGTACTTTGCCAAGGAGTGCAACTGAAGTACGCCTTCATCAAGAAGCACTCGACGGATCACCCGGTGCGGCGCCTATGCCAAAC
CCTAAAGGTGCATCCCAGCGGCTACTACGCCTGGCTGACCGAGCCTCAATCTGCCCGAGCAAAAGAAGATCATCGTCTGCTTGGCTTGATCAAACATGCT
TGGCTCGAAAGCGGAGGTGTGTACGGCTACCGCAAAATTCATGATGACCTGCGTGAGCTGGGAGAGACATGCGGGCGCAATCGAGTCGGACGCTTGATGC
AGGCAGAGGGGTTGCGTTCGCAAACGGGCTATCGGCGGCGTCCAGGGTTTTACGGTGGAAAGCCAACAGTGGCCTCTCCCAACCATCTCGCGCGGCAGTT
CAAAGTCAGTGAGCCGAATAAGGTCTGGGTAACCGATATCACTTACATCCGCACCTATGAAGGATGGCTGTACCTAGCGGTAGTCCTGGATCTGTTTTCC
CGCCAAGTGATTGGCTGGTCAATGAAGCCCCGCATGTGCAGCGACCTGGCGCTTGACGCGATGTTGATGGCCGTGTGGCGCCGCAAACCACGGCAGCAAG
TGATGATCCATTCAGACCAAGGCAGTCAATTCAGTAGCTCAGACTGGCAAAGCTTCTTGAAGGCCAACAATATAATCAGCAGCATGAGTCGGCGGGGAAA
TTGCCACGACAATGCCGTAGCCGAAAGCTTTTTCCAGCTTTTGAAGCGGGAGCGAATCCGACGAAAAATCTACGCAACACGTGACGAAGCCCGAAGTGAT
ATTTTCGATTACATTGAAATGTTTTATAACCCAAGGCGCAGACACAGCAGTGCTATGCAGCTGTCGCCAGTAGAGTATGAGAAACGCTATTTTCTGAGCT
TGGAGAGTGTCTAGGAAACCAGGGGCGATTCA
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 | 64 | 342 | + | No |
Description : Second part of the transposase
ORF sequence :
MQLKYAFIKKHSTDHPVRRLCQTLKVHPSGYYAWLTEPQSARAKEDHRLLGLIKHAWLESGGVYGYRKIHDDLRELGETCGRNRVGRLMQAEGLRSQTGY
RRRPGFYGGKPTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRKPRQQVMIHSDQGSQF
SSSDWQSFLKANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKRYFLSLESV
RRRPGFYGGKPTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRKPRQQVMIHSDQGSQF
SSSDWQSFLKANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKRYFLSLESV
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 927 bp | 308 aa | 288 | 1214 | + | No |
Description : Second part of the transposase
ORF sequence :
RARHLKKGRRVLCQGVQLKYAFIKKHSTDHPVRRLCQTLKVHPSGYYAWLTEPQSARAKEDHRLLGLIKHAWLESGGVYGYRKIHDDLRELGETCGRNRV
GRLMQAEGLRSQTGYRRRPGFYGGKPTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRK
PRQQVMIHSDQGSQFSSSDWQSFLKANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKR
YFLSLESV
GRLMQAEGLRSQTGYRRRPGFYGGKPTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRK
PRQQVMIHSDQGSQFSSSDWQSFLKANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKR
YFLSLESV
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1151 bp | 383 aa | 64 | 1214 | + | Yes |
Chemistry : DDE
ORF sequence :
MSRQRYPEEFKIEAVKQVTEKGKTVADVAQRLGMSVHSLYAWIKLYSKPQEQRQQDDEQQAELRKLRAELKRVTEERDILKKGRRVLCQGVQLKYAFIKK
HSTDHPVRRLCQTLKVHPSGYYAWLTEPQSARAKEDHRLLGLIKHAWLESGGVYGYRKIHDDLRELGETCGRNRVGRLMQAEGLRSQTGYRRRPGFYGGK
PTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRKPRQQVMIHSDQGSQFSSSDWQSFLK
ANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKRYFLSLESV
HSTDHPVRRLCQTLKVHPSGYYAWLTEPQSARAKEDHRLLGLIKHAWLESGGVYGYRKIHDDLRELGETCGRNRVGRLMQAEGLRSQTGYRRRPGFYGGK
PTVASPNHLARQFKVSEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVIGWSMKPRMCSDLALDAMLMAVWRRKPRQQVMIHSDQGSQFSSSDWQSFLK
ANNIISSMSRRGNCHDNAVAESFFQLLKRERIRRKIYATRDEARSDIFDYIEMFYNPRRRHSSAMQLSPVEYEKRYFLSLESV
Blast result :
Comments
Genome in progress.
ISPpu22 is 87% (ORFA) and 91% (ORFB) aa similar to ISPsy29. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISPpu22 is 87% (ORFA) and 91% (ORFB) aa similar to ISPsy29. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Pitluck,S., McCarthy,J.K. and Richardson,P.Direct submission GenBank (2007)