ISRde3
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_008209 | ND | Roseobacter denitrificans | Roseobacter denitrificans OCh 114 |
DNA section
IS Length : 908 bp
Ends
IR Length : 31/46
IRL : TGACCTGCTCCCCTGTAATGTCCTCGAATTTTGGTTGGCCTGTTCTCCAA
IRR : CGACCTGCTCCCCTGAGAGTTCGCGTTTTTCAGTTAGCTCTGTTCAGGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CTGTGCTGCG | GGCGCCCGAT | 0 |
DNA sequence
TGACCTGCTCCCCTGTAATGTCCTCGAATTTTGGTTGGCCTGTTCTCCAACTGAGGAGACAGACGATGAAGAAAAGCCGTTTTAGCGAAGAACAAATCAT
TGGGATTTTGAAGGAGCACCAGGCTGGGCTTGGCGCGAGGGAGCTGTGCCGCAAGCACGGGATCAGCGATGCTACGTTCTACAAGTGGCGGTCGAAGTAT
GGCGGCATGAAAGTGTCCGATGCGCGGCGGCTGAAGACGCTGGAATCTGAGAACGCCACGCTGAAGAAGATGCTGGCCGAGCAGATGATGGATGTGGCCA
CGCTCAAGGAAATGCTTGGAAAAAACCTCTGAAGCCCAATTCGAGGAGGAATGCTGTGGATTGGGCGATGACGACCAAAACCAACGGTGGTCGCTCGACT
TCATGTTGGACGCGCATGAAGACGGGCGGCGGTACAGGGTGCTGAATGTCATCGACGACTTCAGCCAGGAATGCCTGGCCGCCGTAGTCGACACATCCAT
TGACGGTGCGCATGTCGCCCGTGAGCTGGACCGGATCGCCGAGTTGCGAGGCTATCCATGCCTTGTGGTCAGCGACAACGGGGCGGAGCTGACCTCGAAC
GTGATGCTCAAATGGCAAGAGGATCGCAAGGTCGACTGGCACTATATCGCACCCGGAAAGCCCATGCAGAACGGCCTGGTGGAAAGCTTCAACGCACGGA
TGAGCGAGGAGTGCCTGAACGAGCACCTGTTCCCGTCTCTGCGCCATGCCCGCCACATGATTGCGGCAAGGCGCGCCGGCTACAATCACCAACGCCCACA
TTCAAGCCTCGACGGGCTCACCCCGTGGGAGTATCACCAACGGTCAAGAGAGGACCAAAACCTGAACAGAGCTAACTGAAAAACGCGAACTCTCAGGGGA
GCAGGTCG
TGGGATTTTGAAGGAGCACCAGGCTGGGCTTGGCGCGAGGGAGCTGTGCCGCAAGCACGGGATCAGCGATGCTACGTTCTACAAGTGGCGGTCGAAGTAT
GGCGGCATGAAAGTGTCCGATGCGCGGCGGCTGAAGACGCTGGAATCTGAGAACGCCACGCTGAAGAAGATGCTGGCCGAGCAGATGATGGATGTGGCCA
CGCTCAAGGAAATGCTTGGAAAAAACCTCTGAAGCCCAATTCGAGGAGGAATGCTGTGGATTGGGCGATGACGACCAAAACCAACGGTGGTCGCTCGACT
TCATGTTGGACGCGCATGAAGACGGGCGGCGGTACAGGGTGCTGAATGTCATCGACGACTTCAGCCAGGAATGCCTGGCCGCCGTAGTCGACACATCCAT
TGACGGTGCGCATGTCGCCCGTGAGCTGGACCGGATCGCCGAGTTGCGAGGCTATCCATGCCTTGTGGTCAGCGACAACGGGGCGGAGCTGACCTCGAAC
GTGATGCTCAAATGGCAAGAGGATCGCAAGGTCGACTGGCACTATATCGCACCCGGAAAGCCCATGCAGAACGGCCTGGTGGAAAGCTTCAACGCACGGA
TGAGCGAGGAGTGCCTGAACGAGCACCTGTTCCCGTCTCTGCGCCATGCCCGCCACATGATTGCGGCAAGGCGCGCCGGCTACAATCACCAACGCCCACA
TTCAAGCCTCGACGGGCTCACCCCGTGGGAGTATCACCAACGGTCAAGAGAGGACCAAAACCTGAACAGAGCTAACTGAAAAACGCGAACTCTCAGGGGA
GCAGGTCG
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 | |
|---|---|---|---|---|---|
| 267 bp | 88 aa | 66 | 332 | + | No |
Description : First part of the transposase
ORF sequence :
MKKSRFSEEQIIGILKEHQAGLGARELCRKHGISDATFYKWRSKYGGMKVSDARRLKTLESENATLKKMLAEQMMDVATLKEMLGKNL
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 591 bp | 196 aa | 289 | 879 | + | No |
Description : Second part of the transposase
ORF sequence :
WMWPRSRKCLEKTSEAQFEEECCGLGDDDQNQRWSLDFMLDAHEDGRRYRVLNVIDDFSQECLAAVVDTSIDGAHVARELDRIAELRGYPCLVVSDNGAE
LTSNVMLKWQEDRKVDWHYIAPGKPMQNGLVESFNARMSEECLNEHLFPSLRHARHMIAARRAGYNHQRPHSSLDGLTPWEYHQRSREDQNLNRAN
LTSNVMLKWQEDRKVDWHYIAPGKPMQNGLVESFNARMSEECLNEHLFPSLRHARHMIAARRAGYNHQRPHSSLDGLTPWEYHQRSREDQNLNRAN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 814 bp | 270 aa | 66 | 879 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKSRFSEEQIIGILKEHQAGLGARELCRKHGISDATFYKWRSKYGGMKVSDARRLKTLESENATLKKMLAEQMMDVATLKEMLGKTSEAQFEEECCGLG
DDDQNQRWSLDFMLDAHEDGRRYRVLNVIDDFSQECLAAVVDTSIDGAHVARELDRIAELRGYPCLVVSDNGAELTSNVMLKWQEDRKVDWHYIAPGKPM
QNGLVESFNARMSEECLNEHLFPSLRHARHMIAARRAGYNHQRPHSSLDGLTPWEYHQRSREDQNLNRAN
DDDQNQRWSLDFMLDAHEDGRRYRVLNVIDDFSQECLAAVVDTSIDGAHVARELDRIAELRGYPCLVVSDNGAELTSNVMLKWQEDRKVDWHYIAPGKPM
QNGLVESFNARMSEECLNEHLFPSLRHARHMIAARRAGYNHQRPHSSLDGLTPWEYHQRSREDQNLNRAN
Blast result :
Comments
ISRde3 is 97% (ORFA) and 90% (ORFB) aa similar to ISRde2. 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.