ISMra4
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_010510 | ND | Methylobacterium radiotolerans | Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01 |
DNA section
IS Length : 1237 bp
Ends
IR Length : 20/27
IRL : TGGACTTGTCTCGAGAAAGTGGAGAGCTCTTTTCCTGAAGGAGGAGGGTT
IRR : TGGACTTGCTTCAGTTCAGTGGAGAGCAGCTTGGTGGTTGATACCCCTCT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CGGTTTGCGG | TCGAGCGCCT | 0 |
DNA sequence
TGGACTTGTCTCGAGAAAGTGGAGAGCTCTTTTCCTGAAGGAGGAGGGTTCCGATGGCAGACCGGAAGCAGACCTTTACCCCTGAGTTTCGTGCTGAGGC
GGTGCGATTGGCGCAGACAAGTGGGCGGTCGCGCCGCGAGGTCGCCGCCGATCTCGGCGTCGGGCTCTCGACGCTGCGCAACTGGATCGACGGTCGACGT
GAGCGAGAGATGGACAACCCACCGGCCGACCGGCAGGAGGACATGGCCGCCGAGCTCAAGCGTCTGCGCCGCGAGAACGAGGTGCTGCGCCAGGAGCGGG
AGATCCTGAGGCGGGCCACGGCTTTTTTCGCCAAGGAGGGAAGTCGATGAGGTTCCGCCTCATCGACGCGGCGAAGAAGGACTTCCCGGTCGCGCGCCTG
TGCAAGGTCCTCGACGTCAGTCCGAGCGGCTATTTCGCCTGGAAGAACCGCCCGGCCTCGACGCGGCAGCGCGAGGATCTCGTGCTGCTTGCCCACGTCC
GATCCGCCTTCACGCTCTCGCACGAGACGTATGGCAGCCCGCGCATGACCCACGAGTTGCGCGAGCAGGGCCTGGCGGCAGGCCGGCGGCGCGTGGCCCG
GCTGATGCGGGAGAACGGGCTCAAAGCCCGCCAGCCGCGCCGCTTCCGGCGCACGACGGACAGCGGCCACGCCTTTCCGGTCGCGCCCAACCACCTCGAC
CAGGACTTCACGGCGGCCGGGCCGGACCGCAAGTGGGGAAGCGACATCTCCTACATCTGGACGCGGGAGGGCTGGTTGTACCTGGCGGTGGTCCTCGATC
TGTACTCCCGACGGGTCGTGGGCCGGGCGGCGGGCGACCGGCTTCACAAGGAGCTCGCGCTGACCGCGCTGCGACGTGCCCTTGTCGTCCGACGGCCCGG
ACCAGGTTTATTTCATCATTCCGACCGCGGCAGTCAGTACTGTTCGAATGAGTATCAGGCGGAACTACGAGGACATGGCATCGTGATCTCGATGTCCGGC
AAGGGAAATTGTTATGACAACGCGATGGTCGAGACGTTCTTCAAGACGCTGAAGAGCGAGTTGGTCTGGCGCACCGCGTTCCAGACGCGAGCCGAGGCCA
CCATCGCGCTGGCCCGTTACATCGATGGCTTTTACAATCCCTGCCGCCGTCACTCGGCGCTGGGCTTCACAAGCCCCACCCAGTTCGAGAGGGGTATCAA
CCACCAAGCTGCTCTCCACTGAACTGAAGCAAGTCCA
GGTGCGATTGGCGCAGACAAGTGGGCGGTCGCGCCGCGAGGTCGCCGCCGATCTCGGCGTCGGGCTCTCGACGCTGCGCAACTGGATCGACGGTCGACGT
GAGCGAGAGATGGACAACCCACCGGCCGACCGGCAGGAGGACATGGCCGCCGAGCTCAAGCGTCTGCGCCGCGAGAACGAGGTGCTGCGCCAGGAGCGGG
AGATCCTGAGGCGGGCCACGGCTTTTTTCGCCAAGGAGGGAAGTCGATGAGGTTCCGCCTCATCGACGCGGCGAAGAAGGACTTCCCGGTCGCGCGCCTG
TGCAAGGTCCTCGACGTCAGTCCGAGCGGCTATTTCGCCTGGAAGAACCGCCCGGCCTCGACGCGGCAGCGCGAGGATCTCGTGCTGCTTGCCCACGTCC
GATCCGCCTTCACGCTCTCGCACGAGACGTATGGCAGCCCGCGCATGACCCACGAGTTGCGCGAGCAGGGCCTGGCGGCAGGCCGGCGGCGCGTGGCCCG
GCTGATGCGGGAGAACGGGCTCAAAGCCCGCCAGCCGCGCCGCTTCCGGCGCACGACGGACAGCGGCCACGCCTTTCCGGTCGCGCCCAACCACCTCGAC
CAGGACTTCACGGCGGCCGGGCCGGACCGCAAGTGGGGAAGCGACATCTCCTACATCTGGACGCGGGAGGGCTGGTTGTACCTGGCGGTGGTCCTCGATC
TGTACTCCCGACGGGTCGTGGGCCGGGCGGCGGGCGACCGGCTTCACAAGGAGCTCGCGCTGACCGCGCTGCGACGTGCCCTTGTCGTCCGACGGCCCGG
ACCAGGTTTATTTCATCATTCCGACCGCGGCAGTCAGTACTGTTCGAATGAGTATCAGGCGGAACTACGAGGACATGGCATCGTGATCTCGATGTCCGGC
AAGGGAAATTGTTATGACAACGCGATGGTCGAGACGTTCTTCAAGACGCTGAAGAGCGAGTTGGTCTGGCGCACCGCGTTCCAGACGCGAGCCGAGGCCA
CCATCGCGCTGGCCCGTTACATCGATGGCTTTTACAATCCCTGCCGCCGTCACTCGGCGCTGGGCTTCACAAGCCCCACCCAGTTCGAGAGGGGTATCAA
CCACCAAGCTGCTCTCCACTGAACTGAAGCAAGTCCA
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 | |
---|---|---|---|---|---|
297 bp | 98 aa | 54 | 350 | + | No |
Description : First part of the transposase
ORF sequence :
MADRKQTFTPEFRAEAVRLAQTSGRSRREVAADLGVGLSTLRNWIDGRREREMDNPPADRQEDMAAELKRLRRENEVLRQEREILRRATAFFAKEGSR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1020 bp | 339 aa | 203 | 1222 | + | No |
Description : Second part of the transposase
ORF sequence :
ARDGQPTGRPAGGHGRRAQASAPRERGAAPGAGDPEAGHGFFRQGGKSMRFRLIDAAKKDFPVARLCKVLDVSPSGYFAWKNRPASTRQREDLVLLAHVR
SAFTLSHETYGSPRMTHELREQGLAAGRRRVARLMRENGLKARQPRRFRRTTDSGHAFPVAPNHLDQDFTAAGPDRKWGSDISYIWTREGWLYLAVVLDL
YSRRVVGRAAGDRLHKELALTALRRALVVRRPGPGLFHHSDRGSQYCSNEYQAELRGHGIVISMSGKGNCYDNAMVETFFKTLKSELVWRTAFQTRAEAT
IALARYIDGFYNPCRRHSALGFTSPTQFERGINHQAALH
SAFTLSHETYGSPRMTHELREQGLAAGRRRVARLMRENGLKARQPRRFRRTTDSGHAFPVAPNHLDQDFTAAGPDRKWGSDISYIWTREGWLYLAVVLDL
YSRRVVGRAAGDRLHKELALTALRRALVVRRPGPGLFHHSDRGSQYCSNEYQAELRGHGIVISMSGKGNCYDNAMVETFFKTLKSELVWRTAFQTRAEAT
IALARYIDGFYNPCRRHSALGFTSPTQFERGINHQAALH
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1169 bp | 389 aa | 54 | 1222 | + | Yes |
Chemistry : DDE
ORF sequence :
MADRKQTFTPEFRAEAVRLAQTSGRSRREVAADLGVGLSTLRNWIDGRREREMDNPPADRQEDMAAELKRLRRENEVLRQEREILRRATAFFRQGGKSMR
FRLIDAAKKDFPVARLCKVLDVSPSGYFAWKNRPASTRQREDLVLLAHVRSAFTLSHETYGSPRMTHELREQGLAAGRRRVARLMRENGLKARQPRRFRR
TTDSGHAFPVAPNHLDQDFTAAGPDRKWGSDISYIWTREGWLYLAVVLDLYSRRVVGRAAGDRLHKELALTALRRALVVRRPGPGLFHHSDRGSQYCSNE
YQAELRGHGIVISMSGKGNCYDNAMVETFFKTLKSELVWRTAFQTRAEATIALARYIDGFYNPCRRHSALGFTSPTQFERGINHQAALH
FRLIDAAKKDFPVARLCKVLDVSPSGYFAWKNRPASTRQREDLVLLAHVRSAFTLSHETYGSPRMTHELREQGLAAGRRRVARLMRENGLKARQPRRFRR
TTDSGHAFPVAPNHLDQDFTAAGPDRKWGSDISYIWTREGWLYLAVVLDLYSRRVVGRAAGDRLHKELALTALRRALVVRRPGPGLFHHSDRGSQYCSNE
YQAELRGHGIVISMSGKGNCYDNAMVETFFKTLKSELVWRTAFQTRAEATIALARYIDGFYNPCRRHSALGFTSPTQFERGINHQAALH
Blast result :
Comments
ISMra4 is 78% aa similar to ISNisp1.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
References
1] Ming-Chun Lee and David Robinson (2009) Direct submission.
2] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kiss,H., Brettin,T., Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Marx,C.J. and Richardson,P. (2008) Direct submission Genbank.
2] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kiss,H., Brettin,T., Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Marx,C.J. and Richardson,P. (2008) Direct submission Genbank.