ISRde1
- Family IS3
- Group IS51
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_008209 | ND | Roseobacter denitrificans | Roseobacter denitrificans OCh 114 |
DNA section
IS Length : 1238 bp
Ends
IR Length : 34/39
IRL : TGGCCTGCTGCCGGTTTCGTGGACACCGAGATAAGGTTTTTATGAAACTG
IRR : TGGCCTGCTGCCGGTTTCGTGGACGGCAACTTAAGCTTTCATAGCTCGCT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GCCGTCATGG | GTTTGATGAC | 0 |
DNA sequence
TGGCCTGCTGCCGGTTTCGTGGACACCGAGATAAGGTTTTTATGAAACTGGAGGATCTATATGACGAGAAGGATGTTCAGCCGCGAGTTCAAGCAGGAAG
CGGTGAAATTGGTGACGAAGCGTGGCGTGAGTGCGGCGCAAGCTTCGAGGGATCTGGGAATACATGCGACTGTGCTGCGCCGTTGGGTTCGGGCAGCAGC
GGTTGATGGCCCGGCAGCGTTTCCAGGGAATGGTAAGTTAACACCTGAGCAGGAAGAGCTCAGGATTCTTCGACGTGAGGTCGCCAAGCTGAAGGCGGAG
CGTGACATCTTAAAAAAAGCGGCCGCCTACTTCGCCAAGGACCAGCTGTGATGTTTGGGTTTGTGGCGAAGCACCGAGGGGTCTGGCCAGTGAGTTGGAT
GTGTGATGCGCTCGGTGTGTCACGAAGCGGCTTTCATGCCTGGCTGACGCGACCGCGCAGCGACCGGTCTATTCGCGACGAAGAGCTTTCGGCGGCGATC
CGTGCGAGCTTTCTGCGATCGGACCGAACCTATGGAGCCCGACGGGTCTGGCACGATCTTCTCGAAGAAGGTTATGCCTGTGGCCTGCATTGCGTTGAAC
GATTGATGCGACAAGCAGCGTTCAAGGCCCGCCCCAAGCGTCGGCAACCGCCAAAAGACCAAGGCATGAGGTCGGTCATAGCTGCCAACGTGCTTGAACG
AGAGTTTGATGCGGATGGGCCGAACCAGAAATGGGTGGCCGACTTCACCTATGTCTGGACCGCGCAAGGGTGGCTCTACGTTGCAGCCGTCATCGATCTG
TTCTCGCGGCGTGTCGTTGGCTGGTCAATGAGCGAACAAATGACGTCTCAGATGGTCACGGACGCTCTGATCATGGCGATCTGGCGCAGAGGCAGGCCCG
ACGAGTTGCTGCACCATTCCGACCAGGGCAGCCAATACACCAGTGAGCCGTTCCAGCGACTGATGGCCGATCACGGCATCACCTGTTCGATGAGCCGTTC
AGGGAATGTCTGGGACAACGCTGCAATGGAAAGCTTCTTCTCTTCGCTTAAGACAGAACGGATCAAACGCAAAACCTACAGAACCAGAAAGCACGCGCGC
GCAGATGTCTTCGATTACATCGAACGCTTCTACAACCCGAAGCGTCGCCACTCGACCATCGGCTAGCTAAGCCCTATCACATTCGAGGAGCGAGCTATGA
AAGCTTAAGTTGCCGTCCACGAAACCGGCAGCAGGCCA
CGGTGAAATTGGTGACGAAGCGTGGCGTGAGTGCGGCGCAAGCTTCGAGGGATCTGGGAATACATGCGACTGTGCTGCGCCGTTGGGTTCGGGCAGCAGC
GGTTGATGGCCCGGCAGCGTTTCCAGGGAATGGTAAGTTAACACCTGAGCAGGAAGAGCTCAGGATTCTTCGACGTGAGGTCGCCAAGCTGAAGGCGGAG
CGTGACATCTTAAAAAAAGCGGCCGCCTACTTCGCCAAGGACCAGCTGTGATGTTTGGGTTTGTGGCGAAGCACCGAGGGGTCTGGCCAGTGAGTTGGAT
GTGTGATGCGCTCGGTGTGTCACGAAGCGGCTTTCATGCCTGGCTGACGCGACCGCGCAGCGACCGGTCTATTCGCGACGAAGAGCTTTCGGCGGCGATC
CGTGCGAGCTTTCTGCGATCGGACCGAACCTATGGAGCCCGACGGGTCTGGCACGATCTTCTCGAAGAAGGTTATGCCTGTGGCCTGCATTGCGTTGAAC
GATTGATGCGACAAGCAGCGTTCAAGGCCCGCCCCAAGCGTCGGCAACCGCCAAAAGACCAAGGCATGAGGTCGGTCATAGCTGCCAACGTGCTTGAACG
AGAGTTTGATGCGGATGGGCCGAACCAGAAATGGGTGGCCGACTTCACCTATGTCTGGACCGCGCAAGGGTGGCTCTACGTTGCAGCCGTCATCGATCTG
TTCTCGCGGCGTGTCGTTGGCTGGTCAATGAGCGAACAAATGACGTCTCAGATGGTCACGGACGCTCTGATCATGGCGATCTGGCGCAGAGGCAGGCCCG
ACGAGTTGCTGCACCATTCCGACCAGGGCAGCCAATACACCAGTGAGCCGTTCCAGCGACTGATGGCCGATCACGGCATCACCTGTTCGATGAGCCGTTC
AGGGAATGTCTGGGACAACGCTGCAATGGAAAGCTTCTTCTCTTCGCTTAAGACAGAACGGATCAAACGCAAAACCTACAGAACCAGAAAGCACGCGCGC
GCAGATGTCTTCGATTACATCGAACGCTTCTACAACCCGAAGCGTCGCCACTCGACCATCGGCTAGCTAAGCCCTATCACATTCGAGGAGCGAGCTATGA
AAGCTTAAGTTGCCGTCCACGAAACCGGCAGCAGGCCA
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 | |
|---|---|---|---|---|---|
| 291 bp | 96 aa | 61 | 351 | + | No |
Description : First part of the transposase
ORF sequence :
MTRRMFSREFKQEAVKLVTKRGVSAAQASRDLGIHATVLRRWVRAAAVDGPAAFPGNGKLTPEQEELRILRREVAKLKAERDILKKAAAYFAKDQL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 861 bp | 286 aa | 306 | 1166 | + | No |
Description : Second part of the transposase
ORF sequence :
HLKKSGRLLRQGPAVMFGFVAKHRGVWPVSWMCDALGVSRSGFHAWLTRPRSDRSIRDEELSAAIRASFLRSDRTYGARRVWHDLLEEGYACGLHCVERL
MRQAAFKARPKRRQPPKDQGMRSVIAANVLEREFDADGPNQKWVADFTYVWTAQGWLYVAAVIDLFSRRVVGWSMSEQMTSQMVTDALIMAIWRRGRPDE
LLHHSDQGSQYTSEPFQRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERIKRKTYRTRKHARADVFDYIERFYNPKRRHSTIG
MRQAAFKARPKRRQPPKDQGMRSVIAANVLEREFDADGPNQKWVADFTYVWTAQGWLYVAAVIDLFSRRVVGWSMSEQMTSQMVTDALIMAIWRRGRPDE
LLHHSDQGSQYTSEPFQRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERIKRKTYRTRKHARADVFDYIERFYNPKRRHSTIG
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1106 bp | 368 aa | 61 | 1166 | + | Yes |
Chemistry : DDE
ORF sequence :
MTRRMFSREFKQEAVKLVTKRGVSAAQASRDLGIHATVLRRWVRAAAVDGPAAFPGNGKLTPEQEELRILRREVAKLKAERDILKKSGRLLRQGPAVMFG
FVAKHRGVWPVSWMCDALGVSRSGFHAWLTRPRSDRSIRDEELSAAIRASFLRSDRTYGARRVWHDLLEEGYACGLHCVERLMRQAAFKARPKRRQPPKD
QGMRSVIAANVLEREFDADGPNQKWVADFTYVWTAQGWLYVAAVIDLFSRRVVGWSMSEQMTSQMVTDALIMAIWRRGRPDELLHHSDQGSQYTSEPFQR
LMADHGITCSMSRSGNVWDNAAMESFFSSLKTERIKRKTYRTRKHARADVFDYIERFYNPKRRHSTIG
FVAKHRGVWPVSWMCDALGVSRSGFHAWLTRPRSDRSIRDEELSAAIRASFLRSDRTYGARRVWHDLLEEGYACGLHCVERLMRQAAFKARPKRRQPPKD
QGMRSVIAANVLEREFDADGPNQKWVADFTYVWTAQGWLYVAAVIDLFSRRVVGWSMSEQMTSQMVTDALIMAIWRRGRPDELLHHSDQGSQYTSEPFQR
LMADHGITCSMSRSGNVWDNAAMESFFSSLKTERIKRKTYRTRKHARADVFDYIERFYNPKRRHSTIG
Blast result :
Comments
ISRde1 is 80 % (ORFA) aa similar to ISMlo4 and 83% (ORFB) aa similar to ISAtu4. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Swingley,W.D., Sadekar,S., Mastrian,S.D., Matthies,H.J., Hao,J., Ramos,H., Acharya,C.R., Conrad,A.L., Taylor,H.L., Dejesa,L.C., Shah,M.K., O'huallachain,M.E., Lince,M.T., Blankenship,R.E., Beatty,J.T. and Touchman,J.W. (2007) J. Bacteriol. 189 (3), 683-690.