ISRde2
- 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 : 1203 bp
Ends
IR Length : 38/46
IRL : TGACCTGCTCCCCTGAAAAGTCCTCGAATTTTGGTTAGCCTGTTCTCCAA
IRR : TGACCTGCTCCCCTGAGAGTCCGCTACTTTAGGTTAGCACTGTTCAGGTT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CGATTGCCGG | ATTG | GAGAAAGGTA | 4 |
DNA sequence
TGACCTGCTCCCCTGAAAAGTCCTCGAATTTTGGTTAGCCTGTTCTCCAACTGAGGAGACAGACGATGAAGAGAAGCCGTTTCAGCGAAGAGCAGATCAT
TGGCATTTTGAAAGAGCACCAGGCCGGGCTTGGCGCGAAAGAGCTGTGCCGCAAGCATGGGATCAGCGATGCGACTTTTTACAAGTGGCGATCCAAGTAT
GGCGGCATGGAAGTGTCCGACGCACGGCGGCTCAAGACGCTTGAAAGCGAGAACACCAAACTGAAGAAGATGCTGGCCGAGCAGATGATGGACGTGGCGA
CGCTGAAAGAGATGCTCGGAAAAAACTTCTGAGGCCCGGTTCGAGGAGGAATGCTGTGAACTGGGCCATGAAGACCAAGGGCTACAATCAGAAACGGGCC
TGTTCCTTGGCCGGGATCGATCCGCGTGTTTATCGGCGAAGGTCGAAGCGCCCCGCCGACACGGAATTGCGGGCCAGGATGAAGGAACTGGCGTCCGAGC
GGCGACGGTTCGGATATCGCCGTCTGCATATCCTACTGAAGCGCGAGGGATGGCAAGTGAACTGGAAGAAGCTGTACCGGCTCTACCGCGAAGAAGGGTT
AACCGTTCGCAAACGGGGCGGGCGCAAGCGTGCTGTGGGCACCAGGACGCCTATGGCGATCCCGCAGGGGCCGAACCAGCGATGGTCACTCGACTTCATG
TCGGATGCATTGGAGGATGGTCGCCGGTTCCGGGTTTTGAATGTGATCGATGACTTCAGCCGGGAATGCCTGGCCGCTGTGGTGGACACATCCATCGGAG
GCACGCGTGTTGCCCGTGAGCTGGATCGCATCGCAGAACTCCGTGGCTATCCCTGCATGGTGGTCTCAGACAACGGCACAGAACTGACCAGCAATGCGAT
GCTGAAATGGCAGGAAAACCGCAAAGTTGGTTGGCACTACATCGCGCCAGGAAAGCCGATGCAGAACGGTCTTGTCGAAAGCTTCAACGGGCGAATGCGC
GAAGAATGCCTCAATGAACACCTGTTCCCGTCTTTGCGCCATGCCCGCCGCATGATTGCGGCATGGCGCGGCGACTACAATCACTACCGCCCACATTCGA
GCCTCGACGGGCTCACGCCGTGGGAGTATCACCAACGGTCAAAGGAAGACCAAAACCTGAACAGTGCTAACCTAAAGTAGCGGACTCTCAGGGGAGCAGG
TCA
TGGCATTTTGAAAGAGCACCAGGCCGGGCTTGGCGCGAAAGAGCTGTGCCGCAAGCATGGGATCAGCGATGCGACTTTTTACAAGTGGCGATCCAAGTAT
GGCGGCATGGAAGTGTCCGACGCACGGCGGCTCAAGACGCTTGAAAGCGAGAACACCAAACTGAAGAAGATGCTGGCCGAGCAGATGATGGACGTGGCGA
CGCTGAAAGAGATGCTCGGAAAAAACTTCTGAGGCCCGGTTCGAGGAGGAATGCTGTGAACTGGGCCATGAAGACCAAGGGCTACAATCAGAAACGGGCC
TGTTCCTTGGCCGGGATCGATCCGCGTGTTTATCGGCGAAGGTCGAAGCGCCCCGCCGACACGGAATTGCGGGCCAGGATGAAGGAACTGGCGTCCGAGC
GGCGACGGTTCGGATATCGCCGTCTGCATATCCTACTGAAGCGCGAGGGATGGCAAGTGAACTGGAAGAAGCTGTACCGGCTCTACCGCGAAGAAGGGTT
AACCGTTCGCAAACGGGGCGGGCGCAAGCGTGCTGTGGGCACCAGGACGCCTATGGCGATCCCGCAGGGGCCGAACCAGCGATGGTCACTCGACTTCATG
TCGGATGCATTGGAGGATGGTCGCCGGTTCCGGGTTTTGAATGTGATCGATGACTTCAGCCGGGAATGCCTGGCCGCTGTGGTGGACACATCCATCGGAG
GCACGCGTGTTGCCCGTGAGCTGGATCGCATCGCAGAACTCCGTGGCTATCCCTGCATGGTGGTCTCAGACAACGGCACAGAACTGACCAGCAATGCGAT
GCTGAAATGGCAGGAAAACCGCAAAGTTGGTTGGCACTACATCGCGCCAGGAAAGCCGATGCAGAACGGTCTTGTCGAAAGCTTCAACGGGCGAATGCGC
GAAGAATGCCTCAATGAACACCTGTTCCCGTCTTTGCGCCATGCCCGCCGCATGATTGCGGCATGGCGCGGCGACTACAATCACTACCGCCCACATTCGA
GCCTCGACGGGCTCACGCCGTGGGAGTATCACCAACGGTCAAAGGAAGACCAAAACCTGAACAGTGCTAACCTAAAGTAGCGGACTCTCAGGGGAGCAGG
TCA
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 :
MKRSRFSEEQIIGILKEHQAGLGAKELCRKHGISDATFYKWRSKYGGMEVSDARRLKTLESENTKLKKMLAEQMMDVATLKEMLGKNF
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
936 bp | 311 aa | 245 | 1180 | + | No |
Description : Second part of the transposase
ORF sequence :
KREHQTEEDAGRADDGRGDAERDARKKLLRPGSRRNAVNWAMKTKGYNQKRACSLAGIDPRVYRRRSKRPADTELRARMKELASERRRFGYRRLHILLKR
EGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIPQGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELR
GYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQNGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSK
EDQNLNSANLK
EGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIPQGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELR
GYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQNGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSK
EDQNLNSANLK
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1115 bp | 371 aa | 66 | 1180 | + | Yes |
Chemistry : DDE
ORF sequence :
MKRSRFSEEQIIGILKEHQAGLGAKELCRKHGISDATFYKWRSKYGGMEVSDARRLKTLESENTKLKKMLAEQMMDVATLKEMLGKKLLRPGSRRNAVNW
AMKTKGYNQKRACSLAGIDPRVYRRRSKRPADTELRARMKELASERRRFGYRRLHILLKREGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIP
QGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELRGYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQ
NGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSKEDQNLNSANLK
AMKTKGYNQKRACSLAGIDPRVYRRRSKRPADTELRARMKELASERRRFGYRRLHILLKREGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIP
QGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELRGYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQ
NGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSKEDQNLNSANLK
Blast result :
Comments
ISRde2 is 85 % (ORFA) aa similar to ISR1 and 70% (ORFB) aa similar to IS511. 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