ISMra1
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_010505 | ND | Methylobacterium radiotolerans | Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01 Methylobacterium radiotolerans JCM 2831 |
DNA section
IS Length : 1210 bp
Ends
IR Length : 31/49
IRL : TGACCCTGACCCAGCAAACTGGTCCGCGCCGAGCGCAAGTTTTTCGGGCA
IRR : TGGAGTTGACCCGGTTTGTGGTCCACGACCTATGCAATTTCTCGGGCTGT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CTTGCCCGCA | TCGC | CCGGATCGAA | 4 |
| GGACGGGCCG | CTGc/g | CCCGAAAGCC | 6 |
| AGATCCTGAG | GGCCGACCCT | 0 | |
| GACCGGGAAC | ATGCCCGAAA | 0 | |
| TGCAGCCGAT | ACTGGCCCGA | 0 |
DNA sequence
TGACCCTGACCCAGCAAACTGGTCCGCGCCGAGCGCAAGTTTTTCGGGCATCCTGAACCCTGAAGGAGGGTGGATGCCATGCCTCGCAAACGCTTCACGA
ACGAACAGATCGCCTTTGCCCTGCGGCAGGCGGAGAACGGCGCCTCGGTGGATGAGGTCTGCCGGAAGATGGGCGTGTCTGAGCCGACGTTTTACCGCTG
GAAGAAGCAGTTCGTCGGCATGGGCGTGCCGGAGATCCGGCGGCTGAAGCAGCTGGAGGACGAGAACAGCAAGCTCAAACGGCTGGTGGCCGACCTGACG
CTGGACCGCTCCATGCTGCAGGATGTGCTCAAGCGAAAGTGGTGAGGCCCGCCGTTCGCCGTGAGGTCGCCGGTCACCTGCAGGTGACCTACGGCATCAG
CGAGCGTCGGGCCTGTCAGGCCACCGGTTTCGGCCGCTCGTCTCAGCGTTACCGCAAGCGCGCCGACCCTCAGGTGGCACTGCGCATGCGGCTGAAGGAA
CTCGCTGCCGCACGGGTGCGCTACGGCTACCGGCGGCTGCACATCCTGTTGCGACGGGAGGGCTGGGAGGTGAACCACAAGCGCACCTACCGGATCTACC
GGGACGAAGGGCTGTCGATCCGGCCCAAGCTACCCAAGCGCAAACGGGCCTGGCGCTACCGACAAGGGCGGCCCGCGATCGGCGGTCCCAACGAGGTCTG
GGCCATGGACTTCATGTCCGATCGCCTGTTCGACGGGCGTCCATTCCGGATCCTGACGGTCGTCGATTGCCATACGCGAGAGGCGCTCTCGCTCACACCG
AGAGCCAATTTCCGCGCCTTCCAGGTGACCGAGGCCCTGGACGCACTGGTGAAGCTCCGCGGTCGTCCAAAGAGCCTACGGGTTGACAATGGGCCGGAAT
TCGCCGGGCGCATGCTCGACCAATGGGCTTATCTGAACGGGGTTGAGATCGACTTCTCCCGACCGGGTAAGCCGACCGACAACGCCTACATCGAGTCGTT
CAACGGCCGCCTACGGGCAGAGTGCTTGAACGCTTCGTGGTTCCTATCGCTAGCCGATGCCCGTGAACGCATCGAGGACTGGAGGTGCCACTACAACGAA
GATCGACCCCATACAGCCCTGGGCGGCTTGACGCCCCGAGCCTTCGCCAACCAAGCTGTCACAGCCCGAGAAATTGCATAGGTCGTGGACCACAAACCGG
GTCAACTCCA
ACGAACAGATCGCCTTTGCCCTGCGGCAGGCGGAGAACGGCGCCTCGGTGGATGAGGTCTGCCGGAAGATGGGCGTGTCTGAGCCGACGTTTTACCGCTG
GAAGAAGCAGTTCGTCGGCATGGGCGTGCCGGAGATCCGGCGGCTGAAGCAGCTGGAGGACGAGAACAGCAAGCTCAAACGGCTGGTGGCCGACCTGACG
CTGGACCGCTCCATGCTGCAGGATGTGCTCAAGCGAAAGTGGTGAGGCCCGCCGTTCGCCGTGAGGTCGCCGGTCACCTGCAGGTGACCTACGGCATCAG
CGAGCGTCGGGCCTGTCAGGCCACCGGTTTCGGCCGCTCGTCTCAGCGTTACCGCAAGCGCGCCGACCCTCAGGTGGCACTGCGCATGCGGCTGAAGGAA
CTCGCTGCCGCACGGGTGCGCTACGGCTACCGGCGGCTGCACATCCTGTTGCGACGGGAGGGCTGGGAGGTGAACCACAAGCGCACCTACCGGATCTACC
GGGACGAAGGGCTGTCGATCCGGCCCAAGCTACCCAAGCGCAAACGGGCCTGGCGCTACCGACAAGGGCGGCCCGCGATCGGCGGTCCCAACGAGGTCTG
GGCCATGGACTTCATGTCCGATCGCCTGTTCGACGGGCGTCCATTCCGGATCCTGACGGTCGTCGATTGCCATACGCGAGAGGCGCTCTCGCTCACACCG
AGAGCCAATTTCCGCGCCTTCCAGGTGACCGAGGCCCTGGACGCACTGGTGAAGCTCCGCGGTCGTCCAAAGAGCCTACGGGTTGACAATGGGCCGGAAT
TCGCCGGGCGCATGCTCGACCAATGGGCTTATCTGAACGGGGTTGAGATCGACTTCTCCCGACCGGGTAAGCCGACCGACAACGCCTACATCGAGTCGTT
CAACGGCCGCCTACGGGCAGAGTGCTTGAACGCTTCGTGGTTCCTATCGCTAGCCGATGCCCGTGAACGCATCGAGGACTGGAGGTGCCACTACAACGAA
GATCGACCCCATACAGCCCTGGGCGGCTTGACGCCCCGAGCCTTCGCCAACCAAGCTGTCACAGCCCGAGAAATTGCATAGGTCGTGGACCACAAACCGG
GTCAACTCCA
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 | 79 | 345 | + | No |
Description : First part of the transposase
ORF sequence :
MPRKRFTNEQIAFALRQAENGASVDEVCRKMGVSEPTFYRWKKQFVGMGVPEIRRLKQLEDENSKLKRLVADLTLDRSMLQDVLKRKW
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 999 bp | 332 aa | 183 | 1181 | + | No |
Description : Second part of the transposase
ORF sequence :
ADVLPLEEAVRRHGRAGDPAAEAAGGREQQAQTAGGRPDAGPLHAAGCAQAKVVRPAVRREVAGHLQVTYGISERRACQATGFGRSSQRYRKRADPQVAL
RMRLKELAAARVRYGYRRLHILLRREGWEVNHKRTYRIYRDEGLSIRPKLPKRKRAWRYRQGRPAIGGPNEVWAMDFMSDRLFDGRPFRILTVVDCHTRE
ALSLTPRANFRAFQVTEALDALVKLRGRPKSLRVDNGPEFAGRMLDQWAYLNGVEIDFSRPGKPTDNAYIESFNGRLRAECLNASWFLSLADARERIEDW
RCHYNEDRPHTALGGLTPRAFANQAVTAREIA
RMRLKELAAARVRYGYRRLHILLRREGWEVNHKRTYRIYRDEGLSIRPKLPKRKRAWRYRQGRPAIGGPNEVWAMDFMSDRLFDGRPFRILTVVDCHTRE
ALSLTPRANFRAFQVTEALDALVKLRGRPKSLRVDNGPEFAGRMLDQWAYLNGVEIDFSRPGKPTDNAYIESFNGRLRAECLNASWFLSLADARERIEDW
RCHYNEDRPHTALGGLTPRAFANQAVTAREIA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1103 bp | 367 aa | 79 | 1181 | + | Yes |
Chemistry : DDE
ORF sequence :
MPRKRFTNEQIAFALRQAENGASVDEVCRKMGVSEPTFYRWKKQFVGMGVPEIRRLKQLEDENSKLKRLVADLTLDRSMLQDVLKRKVVRPAVRREVAGH
LQVTYGISERRACQATGFGRSSQRYRKRADPQVALRMRLKELAAARVRYGYRRLHILLRREGWEVNHKRTYRIYRDEGLSIRPKLPKRKRAWRYRQGRPA
IGGPNEVWAMDFMSDRLFDGRPFRILTVVDCHTREALSLTPRANFRAFQVTEALDALVKLRGRPKSLRVDNGPEFAGRMLDQWAYLNGVEIDFSRPGKPT
DNAYIESFNGRLRAECLNASWFLSLADARERIEDWRCHYNEDRPHTALGGLTPRAFANQAVTAREIA
LQVTYGISERRACQATGFGRSSQRYRKRADPQVALRMRLKELAAARVRYGYRRLHILLRREGWEVNHKRTYRIYRDEGLSIRPKLPKRKRAWRYRQGRPA
IGGPNEVWAMDFMSDRLFDGRPFRILTVVDCHTREALSLTPRANFRAFQVTEALDALVKLRGRPKSLRVDNGPEFAGRMLDQWAYLNGVEIDFSRPGKPT
DNAYIESFNGRLRAECLNASWFLSLADARERIEDWRCHYNEDRPHTALGGLTPRAFANQAVTAREIA
Blast result :
Comments
ISMra1 is 74% aa similar to ISMex11.
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.