ISPsy28
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_007005 | ND | Pseudomonas syringae | Pseudomonas syringae pv. syringae |
DNA section
IS Length : 1292 bp
Ends
IR Length : 29/29
IRL : TGACCTTGCCCCTGAAAAACGTATCCCTTGCCAGGTGCCTCAATAGCCGC
IRR : TGACCTTGCCCCCGAGAAACGTATCCCTTAACCCGGCGTCGGGGTTGAGT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
TGTTTTTTAA | CGT | TTTATATGAT | 3 |
DNA sequence
TGACCTTGCCCCTGAAAAACGTATCCCTTGCCAGGTGCCTCAATAGCCGCAAGGATACGACATGACTAAGCCCAAGACAGATCGCGTTAAATACACCCTT
GAGTTCAAACTTGAGGCCGTGCGACTGGTCGATACAGGCCTGACGCTTGCTGCCGCTGCCCGCTCTCTGGGTATATCCGACCAGACCTTGTTCAACTGGG
TCAAGGCGCATCGCCAAGGCAGGCTGACCGGCGCTGACATCAAGTCTGTCACTCCCGAGCAGATGGAGATAAGCCGTCTACGAGCCGAGCTGGCACGCGT
CAAGATGGAGCGCGACATTCTGGAAAAGGCGACGGCGTACTTCGCAAAAGCATCCAGCTGAAGTACGCGTTCATCTTTACTCATCGCCGTCTCTGGCCTA
TCGGTGTGCAGTGCCGGGTGCTGGGCGTCAGTGCGACCGGCTTTCATTGCCACCAAGCTCGCTGTGCAGTTAATTGCCCTCAACGAGGTTTAAGCGACGC
AGCATTGCTCGTCCACATTCGCGCCGCTCATGCCCGCAGTCGTGGCAGCTACGGCTGGCCCAGGATCTGGCACGGTTTGCTGGCTGACGGCGTTCGCGTC
GGCAAAGAGCGTGTGCAAAAGCTGATGCAGCTTCATGGTATTTGCGGCAAGGGCAAACGACGTTTCAAAGTGACCACTGATAGCGCTCATGACTTACCCA
TTTCGGAGAACCTGCTGGATCGCCAGTTCGCCGTGATGGAGCCTGACAGAGCTTGGGTGGGCGACATCACCTACATCCCGACAGATGAGGGCTGGCTGTT
TCTGGCGGTAGTGGTAGACCTGTTCAGTCGCCAGATCGTGGGCTGGTCGATGGACGAGCGCATGAAAAGCAGCCTGGTGATTGATGCGTTGCGCATGGCC
TGGTTCAAGCGTCATCCACATAAGGCCTCCGGACTGCTGTTTCATAGTGATCGCGGGAGCCAGTACGCCAGCTTTGATTTTCGTCATGTCCTTCAGGGCT
ACGGGATTGTCAGCTCGATGAGTCGACGGGGCAATTGCTGGGATAACGCGTGCAGCGAGACCGTGTTCGGCTCGTTGAAGGTGGAACGTCTGCATGGCTT
GAAATTCAAAACCCGACGCGCTGCCAAGGACGAGGTCATTAACTGGCTGCTGTGGTACAACCAGGAGCGCCTGCACTCGACGCTTCATTACGTAAGTCCG
ATGCAATACGAGCAGAACTGGCAAAGGCAACAACCTTAGATACTCAACCCCGACGCCGGGTTAAGGGATACGTTTCTCGGGGGCAAGGTCA
GAGTTCAAACTTGAGGCCGTGCGACTGGTCGATACAGGCCTGACGCTTGCTGCCGCTGCCCGCTCTCTGGGTATATCCGACCAGACCTTGTTCAACTGGG
TCAAGGCGCATCGCCAAGGCAGGCTGACCGGCGCTGACATCAAGTCTGTCACTCCCGAGCAGATGGAGATAAGCCGTCTACGAGCCGAGCTGGCACGCGT
CAAGATGGAGCGCGACATTCTGGAAAAGGCGACGGCGTACTTCGCAAAAGCATCCAGCTGAAGTACGCGTTCATCTTTACTCATCGCCGTCTCTGGCCTA
TCGGTGTGCAGTGCCGGGTGCTGGGCGTCAGTGCGACCGGCTTTCATTGCCACCAAGCTCGCTGTGCAGTTAATTGCCCTCAACGAGGTTTAAGCGACGC
AGCATTGCTCGTCCACATTCGCGCCGCTCATGCCCGCAGTCGTGGCAGCTACGGCTGGCCCAGGATCTGGCACGGTTTGCTGGCTGACGGCGTTCGCGTC
GGCAAAGAGCGTGTGCAAAAGCTGATGCAGCTTCATGGTATTTGCGGCAAGGGCAAACGACGTTTCAAAGTGACCACTGATAGCGCTCATGACTTACCCA
TTTCGGAGAACCTGCTGGATCGCCAGTTCGCCGTGATGGAGCCTGACAGAGCTTGGGTGGGCGACATCACCTACATCCCGACAGATGAGGGCTGGCTGTT
TCTGGCGGTAGTGGTAGACCTGTTCAGTCGCCAGATCGTGGGCTGGTCGATGGACGAGCGCATGAAAAGCAGCCTGGTGATTGATGCGTTGCGCATGGCC
TGGTTCAAGCGTCATCCACATAAGGCCTCCGGACTGCTGTTTCATAGTGATCGCGGGAGCCAGTACGCCAGCTTTGATTTTCGTCATGTCCTTCAGGGCT
ACGGGATTGTCAGCTCGATGAGTCGACGGGGCAATTGCTGGGATAACGCGTGCAGCGAGACCGTGTTCGGCTCGTTGAAGGTGGAACGTCTGCATGGCTT
GAAATTCAAAACCCGACGCGCTGCCAAGGACGAGGTCATTAACTGGCTGCTGTGGTACAACCAGGAGCGCCTGCACTCGACGCTTCATTACGTAAGTCCG
ATGCAATACGAGCAGAACTGGCAAAGGCAACAACCTTAGATACTCAACCCCGACGCCGGGTTAAGGGATACGTTTCTCGGGGGCAAGGTCA
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 | |
---|---|---|---|---|---|
300 bp | 99 aa | 62 | 361 | + | No |
Description : First part of the transposase
ORF sequence :
MTKPKTDRVKYTLEFKLEAVRLVDTGLTLAAAARSLGISDQTLFNWVKAHRQGRLTGADIKSVTPEQMEISRLRAELARVKMERDILEKATAYFAKASS
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1002 bp | 333 aa | 238 | 1239 | + | No |
Description : Second part of the transposase
ORF sequence :
HQVCHSRADGDKPSTSRAGTRQDGARHSGKGDGVLRKSIQLKYAFIFTHRRLWPIGVQCRVLGVSATGFHCHQARCAVNCPQRGLSDAALLVHIRAAHAR
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1178 bp | 433 aa | 62 | 1239 | + | Yes |
Chemistry : DDE
ORF sequence :
MTKPKTDRVKYTLEFKLEAVRLVDTGLTLAAAARSLGISDQTLFNWVKAHRQGRLTGADIKSVTPEQMEISRLRAELARVKMERDILEKATAYFAKASSH
QVCHSRADGDKPSTSRAGTRQDGARHSGKGDGVLRKSIQLKYAFIFTHRRLWPIGVQCRVMLGVSATGFHCHQARCAVNCPQRGLSDAALLVHIRAAHAR
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP
QVCHSRADGDKPSTSRAGTRQDGARHSGKGDGVLRKSIQLKYAFIFTHRRLWPIGVQCRVMLGVSATGFHCHQARCAVNCPQRGLSDAALLVHIRAAHAR
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP
Blast result :
Comments
ISPsy28 is 80% (ORFA) and 75% (ORFB) aa similar to ISISBxe1. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Feil,H., Feil,W.S., Chain,P., Larimer,F., Dibartolo,G., Copeland,A., Lykidis,A., Trong,S., Nolan,M., Goltsman,E., Thiel,J., Malfatti,S., Loper,J.E., Lapidus,A., Detter,J.C., Land,M., Richardson,P.M., Kyrpides,N.C., Ivanova,N. and Lindow,S.E.(2005) Proc. Natl. Acad. Sci. U.S.A. 102 (31), 11064-11069.