ISPsy29
- Family IS3
- Group IS51
Isoform Synonym(s) ISPsy26
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007274 | ND | Pseudomonas syringae | Pseudomonas syringae pv. phaseolicola 1448A |
DNA section
IS Length : 1231 bp
Ends
IR Length : 24/28
IRL : TGAATCGCCCCTGGTTTTGTAGACACCTCCATGCCTTAAACTGAGGCCAA
IRR : TGAATCGCCCCGGATTCTCTAGACACCTTGCAAGCTCATTGCGTAACGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| ACTCACGAGA | AA | CAACCCTGCA | 2 |
DNA sequence
TGAATCGCCCCTGGTTTTGTAGACACCTCCATGCCTTAAACTGAGGCCAATCAGGAGGTGCCATGAGCAACCCACGTTATCCCGAAGAATTCAAAATCCA
AGCGGTCAATCAAGTGACCGAAAAGAAGCTGCCTGTCGCTGATGTGGCGGCGCGTCTTGGCGTGTCGACGCATAGCCTCTATGCCTGGATAAAGCGCTAC
AGCAAACCTCAGGCAGAACGGCAGCAAGACGATGATCAGCACGCTGAACTGCGTCGTCTGCGAGCGGAACTCAAGCGGGTCACTGAAGAGCGAGACATCT
TAAAAAAGGCCGCCGCGTACTTTGCCAAGGAGTGCGGCTGAAGTACGCCTTTATCAAGCAGCGCGCGGGCGACTACTCCATTCGACGGTTTTGCCTGACG
CTGAAAGTCCATCCCAGTGGTTATTACGCTTGGTTGTCTGAGCCGCAATCTGCACGCGCTAAAGACGACCAGCGATTGCTGGGTTTGATCAAGCACTCGT
GGCTGAAGAGCGGCGGAGTTTATGGCTATCGCAAAATCCATGACGACCTGCGCGAGGTCGGTGAAGATTGTGGTCGGCATCGTGTGGCGAGGTTGATGCG
TCTTGAAGGTCTGCGCTCTCAGACAGGGTATCGACGTCGTCCTGGAAAGTACGGCGGTAAGCCAGCGGTCGCCTCACCCAATTTACTGAAGCGCGAGTTC
GATGTCGTGGAACCCAACAAGGTTTGGGTCACCGACATCACCTACATTCGTACGTATGAAGGCTGGCTGTATTTGGCGGTGGTGCTGGATCTGTTTTCTC
GTCAGGTCGTTGGCTGGTCAATGAAGTCGCAGATGACCAGTGATTTGGCCATTGATGCGTTATTGATGGCGGTTTGGAGGCGAAAACCGAAACAAGAGGT
GATGGTTCACTCCGACCAGGGCAGCCAGTACAGCAGCTCCGATTGGCGCAGTTTTTTGAAGGCAAACAATTTGGTTGCCAGCATGAGCCGCCGAGGCAAT
TGTCATGACAACGCCGTGGCTGAGAGCTTTTTCCAGCTTCTGAAACGGGAACGAATCAAGCGGAAAATCTACACCTCACGGCAAGATGCTCGTAGTGATG
TGTTCGATTACATCGAGATGTTCTACAACCCAAAACGCCGCCATGGTTTCAACAATCAGCTGTCACCGGTAGAGTTTGAAAAACGTTACGCAATGAGCTT
GCAAGGTGTCTAGAGAATCCGGGGCGATTCA
AGCGGTCAATCAAGTGACCGAAAAGAAGCTGCCTGTCGCTGATGTGGCGGCGCGTCTTGGCGTGTCGACGCATAGCCTCTATGCCTGGATAAAGCGCTAC
AGCAAACCTCAGGCAGAACGGCAGCAAGACGATGATCAGCACGCTGAACTGCGTCGTCTGCGAGCGGAACTCAAGCGGGTCACTGAAGAGCGAGACATCT
TAAAAAAGGCCGCCGCGTACTTTGCCAAGGAGTGCGGCTGAAGTACGCCTTTATCAAGCAGCGCGCGGGCGACTACTCCATTCGACGGTTTTGCCTGACG
CTGAAAGTCCATCCCAGTGGTTATTACGCTTGGTTGTCTGAGCCGCAATCTGCACGCGCTAAAGACGACCAGCGATTGCTGGGTTTGATCAAGCACTCGT
GGCTGAAGAGCGGCGGAGTTTATGGCTATCGCAAAATCCATGACGACCTGCGCGAGGTCGGTGAAGATTGTGGTCGGCATCGTGTGGCGAGGTTGATGCG
TCTTGAAGGTCTGCGCTCTCAGACAGGGTATCGACGTCGTCCTGGAAAGTACGGCGGTAAGCCAGCGGTCGCCTCACCCAATTTACTGAAGCGCGAGTTC
GATGTCGTGGAACCCAACAAGGTTTGGGTCACCGACATCACCTACATTCGTACGTATGAAGGCTGGCTGTATTTGGCGGTGGTGCTGGATCTGTTTTCTC
GTCAGGTCGTTGGCTGGTCAATGAAGTCGCAGATGACCAGTGATTTGGCCATTGATGCGTTATTGATGGCGGTTTGGAGGCGAAAACCGAAACAAGAGGT
GATGGTTCACTCCGACCAGGGCAGCCAGTACAGCAGCTCCGATTGGCGCAGTTTTTTGAAGGCAAACAATTTGGTTGCCAGCATGAGCCGCCGAGGCAAT
TGTCATGACAACGCCGTGGCTGAGAGCTTTTTCCAGCTTCTGAAACGGGAACGAATCAAGCGGAAAATCTACACCTCACGGCAAGATGCTCGTAGTGATG
TGTTCGATTACATCGAGATGTTCTACAACCCAAAACGCCGCCATGGTTTCAACAATCAGCTGTCACCGGTAGAGTTTGAAAAACGTTACGCAATGAGCTT
GCAAGGTGTCTAGAGAATCCGGGGCGATTCA
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 | |
|---|---|---|---|---|---|
| 280 bp | 92 aa | 62 | 341 | + | No |
Description : First part of the transposase
ORF sequence :
MSNPRYPEEFKIQAVNQVTEKKLPVADVAARLGVSTHSLYAWIKRYSKPQAERQQDDDQHAELRRLRAELKRVTEERDILKKAAAYFAKECG
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 927 bp | 308 aa | 287 | 1213 | + | No |
Description : Second part of the transposase
ORF sequence :
RARHLKKGRRVLCQGVRLKYAFIKQRAGDYSIRRFCLTLKVHPSGYYAWLSEPQSARAKDDQRLLGLIKHSWLKSGGVYGYRKIHDDLREVGEDCGRHRV
ARLMRLEGLRSQTGYRRRPGKYGGKPAVASPNLLKREFDVVEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVVGWSMKSQMTSDLAIDALLMAVWRRK
PKQEVMVHSDQGSQYSSSDWRSFLKANNLVASMSRRGNCHDNAVAESFFQLLKRERIKRKIYTSRQDARSDVFDYIEMFYNPKRRHGFNNQLSPVEFEKR
YAMSLQGV
ARLMRLEGLRSQTGYRRRPGKYGGKPAVASPNLLKREFDVVEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVVGWSMKSQMTSDLAIDALLMAVWRRK
PKQEVMVHSDQGSQYSSSDWRSFLKANNLVASMSRRGNCHDNAVAESFFQLLKRERIKRKIYTSRQDARSDVFDYIEMFYNPKRRHGFNNQLSPVEFEKR
YAMSLQGV
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1152 bp | 382 aa | 62 | 1213 | + | Yes |
Chemistry : DDE
ORF sequence :
SNPRYPEEFKIQAVNQVTEKKLPVADVAARLGVSTHSLYAWIKRYSKPQAERQQDDDQHAELRRLRAELKRVTEERDILKKGRRVLCQGVRLKYAFIKQR
AGDYSIRRFCLTLKVHPSGYYAWLSEPQSARAKDDQRLLGLIKHSWLKSGGVYGYRKIHDDLREVGEDCGRHRVARLMRLEGLRSQTGYRRRPGKYGGKP
AVASPNLLKREFDVVEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVVGWSMKSQMTSDLAIDALLMAVWRRKPKQEVMVHSDQGSQYSSSDWRSFLKA
NNLVASMSRRGNCHDNAVAESFFQLLKRERIKRKIYTSRQDARSDVFDYIEMFYNPKRRHGFNNQLSPVEFEKRYAMSLQGV
AGDYSIRRFCLTLKVHPSGYYAWLSEPQSARAKDDQRLLGLIKHSWLKSGGVYGYRKIHDDLREVGEDCGRHRVARLMRLEGLRSQTGYRRRPGKYGGKP
AVASPNLLKREFDVVEPNKVWVTDITYIRTYEGWLYLAVVLDLFSRQVVGWSMKSQMTSDLAIDALLMAVWRRKPKQEVMVHSDQGSQYSSSDWRSFLKA
NNLVASMSRRGNCHDNAVAESFFQLLKRERIKRKIYTSRQDARSDVFDYIEMFYNPKRRHGFNNQLSPVEFEKRYAMSLQGV
Blast result :
Comments
ISPsy29 is 78% (ORFA) and 85% (ORFB) aa similar to ISAisp2. The third ORF is a putative ORFAB transposase reconstructed in sillico by possible -1 frameshift.
References
1] Joardar,V., Lindeberg,M., Jackson,R.W., Selengut,J., Dodson,R., Brinkac,L.M., Daugherty,S.C., Deboy,R., Durkin,A.S., Giglio,M.G., Madupu,R., Nelson,W.C., Rosovitz,M.J., Sullivan,S., Crabtree,J., Creasy,T., Davidsen,T., Haft,D.H., Zafar,N., Zhou,L., Halpin,R., Holley,T., Khouri,H., Feldblyum,T., White,O., Fraser,C.M., Chatterjee,A.K., Cartinhour,S., Schneider,D.J., Mansfield,J., Collmer,A. and Buell,C.R. (2005) J. Bacteriol. 187 (18), 6488-6498