ISStma9
- Family IS3
- Group IS51
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_010943 | ND | Stenotrophomonas maltophilia | Stenotrophomonas maltophilia K279a |
DNA section
IS Length : 1234 bp
Ends
IR Length : 27/35
IRL : TGAATCGCCCAGGGTTCCGTAGACACCTCGCAGCCATAAACTATGGCTTA
IRR : TGAATCGCCCAGGGTTTTCTAGACAGTCGTCAGCCGTTTAGTGCGTACTG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CAGCAATTTG | GCC | TCGACTACTC | 3 |
| TTGTTCGACG | CTTTGGGGTC | 0 | |
| ATCACTTGCT | ACT | TGGCGGTGAG | 3 |
| CTTCTTCTAT | AACCGACAAT | 0 |
DNA sequence
TGAATCGCCCAGGGTTCCGTAGACACCTCGCAGCCATAAACTATGGCTTAGGCGGAGGTGGTTATGAGCACGAAGCGGTACACCGATGAGTTCAAGATCG
AGGCGGTCCGACAGATCGTTGAGTACGGCCGTCCGGTAGCGGAGGTTGCCGAGCGACTGGGCGTGTCGATCCATAGTCTTTACGGCTGGAAGCGGCAACA
AGGCAAAGGCGATGTTGGCCGGCGTGTCGAGCAGGACCAGAACGCGGAAGTGCGCCGCCTCAAGGCTGAGCTACGCAGGGTCACTGAAGAGCGAGACATC
CTAAAAAAAGCCGCCGCGTACTTTGCAAAGGGGTAAGAGCAAAGTACGCCTTCATGAAGCAACACGCAGATGAGTTCGGCCTCGCGGCGATGTGTCGGAT
GCTTGGCGTCCATCGCAGTGGCTACTACGCCTGGCTAAAAGAGCCGGCAAGCGCTCGCGACAAGGACGATCAGCGGTTGCTCGGCCTAATCAAGCACAGC
TGGCTGGAAAGCGGCTCTGTGTATGGCCACCGCAAAGTGACCACAGATCTGCGCGAGCTTGGCGAGACGTGTAGTCGTCATCGCGTGGCACGCTTGATGA
AGAGCGAGGGGCTGCGGGCAATGGTCGGCTACGGTCGGCGACCACGCCCATTGAGCGGCCCTGTTGGATCAGTCGCCAAGAACGTTCTGGCTCGCGGCTT
CAAAGTCAGTGAGCCAAATCGCGCGTGGGTCACGGACATCACCTACATCCGCACGTACGACGGCTTCCTGTACTTGGCGGTAGTGCTTGATCTGTTTTCG
CGTCAGGTCGTTGGATGGGCAACCCGACCAACTCAACATACGGACCTGGTTTTGCAGGCGCTATTGGCTGCAGTGTGGCGGCGCAAGCCAAGCCCCGGGC
TTCTGCTTCACTCCGACCAGGGAACCCAGTTCACCAGCGAAGACTGGCAGAGCTTCCTGCGCGAGCACGACATCGTGTGCAGCATGAGTCGACGAGGAAA
CTGCCATGACAACGCAGCGATGGAGAGCTTCTTCCAGCTACTGAAGCGGGAGCGTATTAAGCGGAGGATCTACAGCAATCACGACGAGGCACGGGCCGAC
GTCTTCCAGTACATCGAGATGTTCTACAACCCAAAACGGCGGCACAGTTCCAACGACGGGCTGTCCCCGGTAGAGTTCGAGAAGCAGTACGCACTAAACG
GCTGACGACTGTCTAGAAAACCCTGGGCGATTCA
AGGCGGTCCGACAGATCGTTGAGTACGGCCGTCCGGTAGCGGAGGTTGCCGAGCGACTGGGCGTGTCGATCCATAGTCTTTACGGCTGGAAGCGGCAACA
AGGCAAAGGCGATGTTGGCCGGCGTGTCGAGCAGGACCAGAACGCGGAAGTGCGCCGCCTCAAGGCTGAGCTACGCAGGGTCACTGAAGAGCGAGACATC
CTAAAAAAAGCCGCCGCGTACTTTGCAAAGGGGTAAGAGCAAAGTACGCCTTCATGAAGCAACACGCAGATGAGTTCGGCCTCGCGGCGATGTGTCGGAT
GCTTGGCGTCCATCGCAGTGGCTACTACGCCTGGCTAAAAGAGCCGGCAAGCGCTCGCGACAAGGACGATCAGCGGTTGCTCGGCCTAATCAAGCACAGC
TGGCTGGAAAGCGGCTCTGTGTATGGCCACCGCAAAGTGACCACAGATCTGCGCGAGCTTGGCGAGACGTGTAGTCGTCATCGCGTGGCACGCTTGATGA
AGAGCGAGGGGCTGCGGGCAATGGTCGGCTACGGTCGGCGACCACGCCCATTGAGCGGCCCTGTTGGATCAGTCGCCAAGAACGTTCTGGCTCGCGGCTT
CAAAGTCAGTGAGCCAAATCGCGCGTGGGTCACGGACATCACCTACATCCGCACGTACGACGGCTTCCTGTACTTGGCGGTAGTGCTTGATCTGTTTTCG
CGTCAGGTCGTTGGATGGGCAACCCGACCAACTCAACATACGGACCTGGTTTTGCAGGCGCTATTGGCTGCAGTGTGGCGGCGCAAGCCAAGCCCCGGGC
TTCTGCTTCACTCCGACCAGGGAACCCAGTTCACCAGCGAAGACTGGCAGAGCTTCCTGCGCGAGCACGACATCGTGTGCAGCATGAGTCGACGAGGAAA
CTGCCATGACAACGCAGCGATGGAGAGCTTCTTCCAGCTACTGAAGCGGGAGCGTATTAAGCGGAGGATCTACAGCAATCACGACGAGGCACGGGCCGAC
GTCTTCCAGTACATCGAGATGTTCTACAACCCAAAACGGCGGCACAGTTCCAACGACGGGCTGTCCCCGGTAGAGTTCGAGAAGCAGTACGCACTAAACG
GCTGACGACTGTCTAGAAAACCCTGGGCGATTCA
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 | |
|---|---|---|---|---|---|
| 273 bp | 90 aa | 64 | 336 | + | No |
Description : First part of the transposase
ORF sequence :
MSTKRYTDEFKIEAVRQIVEYGRPVAEVAERLGVSIHSLYGWKRQQGKGDVGRRVEQDQNAEVRRLKAELRRVTEERDILKKAAAYFAKG
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 918 bp | 305 aa | 288 | 1205 | + | No |
Description : Second part of the transposase
ORF sequence :
RARHPKKSRRVLCKGVRAKYAFMKQHADEFGLAAMCRMLGVHRSGYYAWLKEPASARDKDDQRLLGLIKHSWLESGSVYGHRKVTTDLRELGETCSRHRV
ARLMKSEGLRAMVGYGRRPRPLSGPVGSVAKNVLARGFKVSEPNRAWVTDITYIRTYDGFLYLAVVLDLFSRQVVGWATRPTQHTDLVLQALLAAVWRRK
PSPGLLLHSDQGTQFTSEDWQSFLREHDIVCSMSRRGNCHDNAAMESFFQLLKRERIKRRIYSNHDEARADVFQYIEMFYNPKRRHSSNDGLSPVEFEKQ
YALNG
ARLMKSEGLRAMVGYGRRPRPLSGPVGSVAKNVLARGFKVSEPNRAWVTDITYIRTYDGFLYLAVVLDLFSRQVVGWATRPTQHTDLVLQALLAAVWRRK
PSPGLLLHSDQGTQFTSEDWQSFLREHDIVCSMSRRGNCHDNAAMESFFQLLKRERIKRRIYSNHDEARADVFQYIEMFYNPKRRHSSNDGLSPVEFEKQ
YALNG
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1142 bp | 380 aa | 64 | 1205 | + | Yes |
Chemistry : DDE
ORF sequence :
MSTKRYTDEFKIEAVRQIVEYGRPVAEVAERLGVSIHSLYGWKRQQGKGDVGRRVEQDQNAEVRRLKAELRRVTEERDILKKSRRVLCKGVRAKYAFMKQ
HADEFGLAAMCRMLGVHRSGYYAWLKEPASARDKDDQRLLGLIKHSWLESGSVYGHRKVTTDLRELGETCSRHRVARLMKSEGLRAMVGYGRRPRPLSGP
VGSVAKNVLARGFKVSEPNRAWVTDITYIRTYDGFLYLAVVLDLFSRQVVGWATRPTQHTDLVLQALLAAVWRRKPSPGLLLHSDQGTQFTSEDWQSFLR
EHDIVCSMSRRGNCHDNAAMESFFQLLKRERIKRRIYSNHDEARADVFQYIEMFYNPKRRHSSNDGLSPVEFEKQYALNG
HADEFGLAAMCRMLGVHRSGYYAWLKEPASARDKDDQRLLGLIKHSWLESGSVYGHRKVTTDLRELGETCSRHRVARLMKSEGLRAMVGYGRRPRPLSGP
VGSVAKNVLARGFKVSEPNRAWVTDITYIRTYDGFLYLAVVLDLFSRQVVGWATRPTQHTDLVLQALLAAVWRRKPSPGLLLHSDQGTQFTSEDWQSFLR
EHDIVCSMSRRGNCHDNAAMESFFQLLKRERIKRRIYSNHDEARADVFQYIEMFYNPKRRHSSNDGLSPVEFEKQYALNG
Blast result :
Comments
ISStma9 is 81% aa similar to ISBcen21. There are 4 copies in the genome.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2009)
2] Crossman,L.C., Gould,V.C., Dow,J.M., Vernikos,G.S., Okazaki,A., Sebaihia,M., Saunders,D., Arrowsmith,C., Carver,T., Peters,N., Adlem,E., Kerhornou,A., Lord,A., Murphy,L., Seeger,K., Squares,R., Rutter,S., Quail,M.A., Rajandream,M.A., Harris,D., Churcher,C., Bentley,S.D., Parkhill,J., Thomson,N.R. and Avison,M.B. (2008) Genome Biol. 9 (4), R74
2] Crossman,L.C., Gould,V.C., Dow,J.M., Vernikos,G.S., Okazaki,A., Sebaihia,M., Saunders,D., Arrowsmith,C., Carver,T., Peters,N., Adlem,E., Kerhornou,A., Lord,A., Murphy,L., Seeger,K., Squares,R., Rutter,S., Quail,M.A., Rajandream,M.A., Harris,D., Churcher,C., Bentley,S.D., Parkhill,J., Thomson,N.R. and Avison,M.B. (2008) Genome Biol. 9 (4), R74