ISMlo4
- Family IS3
- Group IS51
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_002678 | ND | Mesorhizobium loti | Mesorhizobium loti MAFF303099 |
DNA section
IS Length : 1239 bp
Ends
IR Length : 28/38
IRL : TGGCCTGCTGCCGGTTTCGTGGACACCGAGATAAGGTGTTTAACGGAACT
IRR : TGGCCTGCTGCCGGTTTTTCGGACACGAGGTTAAGCTAACATAGCTTGTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| AAAAGCGACA | TTG | TTCCAGATTC | 3 |
DNA sequence
TGGCCTGCTGCCGGTTTCGTGGACACCGAGATAAGGTGTTTAACGGAACTGGAGAGTGGGAATGCAGAGAAGGAAGTTCAGCCGCGAGTTCAAGCTTGAG
GCGGTGAGATTGATCGAGGATCGGGGCGTTGCGGTGGCCCAGGCTGCCCGCGACCTCGATGTCCACGAGAATGTGCTGCGCAAATGGGTGCGCGAGCTAT
CGGCCGATCCGCAGCGTGCGTTTCCCGGTCATGGGCAGATGAAGCCGGAGCAGCAGGAGATTGACCGGCTGCGTAAGGAAGTCGCGAAGCTGAAGGCGGA
GCGCGACATCCTAAAAAAGGCCGCAGCCTACTTCGCGAGGGAAGTGACATGAGGTTCGCTTTCATCGCGAGGCACCGGAACATCTGGCCGGTGGCATGGC
TGTGCAGTGCGCTGGATGTGTCCCGCTCGGGCTTCCATGCCTGGCTCAACCGCAGCCCTAGCGTTCGCTCCCAGCATGACGAGATCCTCGTTTCCAGGAT
CGACCGAAGCTTCAAGAGCAGCGACCGCACCTACGGCGCGCGTCGGGTCTGGCACGACGTTCTGGCAGAGGGGCTTTCCTGCGGACTGCATCGCATCGAA
CGCCTCATGCGGGAGAACGGCCTCCGGGCACGTCCACGCCGGCGCGGACTGCCGAAGGATACCGGCGAGCGAGCCGCCGTGTCGGACAACCTCCTCGATC
GCGCCTTCGAGGCATCGGCCCCGAACCAGAAGTGGGTCGCCGACTTCACCTATATCTGGACTGCGGAAGGATGGATCTACGTTGCCGCCGTCGTCGATCT
GTTCTCCCGCCGTGTCGTCGGCTGGGCGATGAAGGCCGAGATGACCGCGCAGCTCGTCACCGACGCTCTCATCATGGCGATCTGGAGGAGAGGCAAGCCC
GACAGCCTGCTGCACCACTCCGACCAGGGATCGCAATATACGAGCGAGCAGTTCCAGCGACTGATGGCCGACCACGGCATCACCTGCTCGATGAGCCGGT
CGGGCAACGTCTGGGACAACGCTGCGATGGAGAGCTTTTTCTCGTCGCTCAAGACCGAGCGGACAGCCCGCAAGGTCTACAGGACGAGAGATGATGCGAG
GGCGGATGTGTTCGATTACATCGAGCGCTTCTATAACCCTCGGCGAAGGCACTCGACGCTGGGCTATCTGAGCCCCGTGGAGTTCGAGGAACAAGCTATG
TTAGCTTAACCTCGTGTCCGAAAAACCGGCAGCAGGCCA
GCGGTGAGATTGATCGAGGATCGGGGCGTTGCGGTGGCCCAGGCTGCCCGCGACCTCGATGTCCACGAGAATGTGCTGCGCAAATGGGTGCGCGAGCTAT
CGGCCGATCCGCAGCGTGCGTTTCCCGGTCATGGGCAGATGAAGCCGGAGCAGCAGGAGATTGACCGGCTGCGTAAGGAAGTCGCGAAGCTGAAGGCGGA
GCGCGACATCCTAAAAAAGGCCGCAGCCTACTTCGCGAGGGAAGTGACATGAGGTTCGCTTTCATCGCGAGGCACCGGAACATCTGGCCGGTGGCATGGC
TGTGCAGTGCGCTGGATGTGTCCCGCTCGGGCTTCCATGCCTGGCTCAACCGCAGCCCTAGCGTTCGCTCCCAGCATGACGAGATCCTCGTTTCCAGGAT
CGACCGAAGCTTCAAGAGCAGCGACCGCACCTACGGCGCGCGTCGGGTCTGGCACGACGTTCTGGCAGAGGGGCTTTCCTGCGGACTGCATCGCATCGAA
CGCCTCATGCGGGAGAACGGCCTCCGGGCACGTCCACGCCGGCGCGGACTGCCGAAGGATACCGGCGAGCGAGCCGCCGTGTCGGACAACCTCCTCGATC
GCGCCTTCGAGGCATCGGCCCCGAACCAGAAGTGGGTCGCCGACTTCACCTATATCTGGACTGCGGAAGGATGGATCTACGTTGCCGCCGTCGTCGATCT
GTTCTCCCGCCGTGTCGTCGGCTGGGCGATGAAGGCCGAGATGACCGCGCAGCTCGTCACCGACGCTCTCATCATGGCGATCTGGAGGAGAGGCAAGCCC
GACAGCCTGCTGCACCACTCCGACCAGGGATCGCAATATACGAGCGAGCAGTTCCAGCGACTGATGGCCGACCACGGCATCACCTGCTCGATGAGCCGGT
CGGGCAACGTCTGGGACAACGCTGCGATGGAGAGCTTTTTCTCGTCGCTCAAGACCGAGCGGACAGCCCGCAAGGTCTACAGGACGAGAGATGATGCGAG
GGCGGATGTGTTCGATTACATCGAGCGCTTCTATAACCCTCGGCGAAGGCACTCGACGCTGGGCTATCTGAGCCCCGTGGAGTTCGAGGAACAAGCTATG
TTAGCTTAACCTCGTGTCCGAAAAACCGGCAGCAGGCCA
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 | 56 | 352 | + | No |
Description : First part of the transposase
ORF sequence :
MGMQRRKFSREFKLEAVRLIEDRGVAVAQAARDLDVHENVLRKWVRELSADPQRAFPGHGQMKPEQQEIDRLRKEVAKLKAERDILKKAAAYFAREVT
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 933 bp | 310 aa | 277 | 1209 | + | No |
Description : Second part of the transposase
ORF sequence :
GSREAEGGARHPKKGRSLLREGSDMRFAFIARHRNIWPVAWLCSALDVSRSGFHAWLNRSPSVRSQHDEILVSRIDRSFKSSDRTYGARRVWHDVLAEGL
SCGLHRIERLMRENGLRARPRRRGLPKDTGERAAVSDNLLDRAFEASAPNQKWVADFTYIWTAEGWIYVAAVVDLFSRRVVGWAMKAEMTAQLVTDALIM
AIWRRGKPDSLLHHSDQGSQYTSEQFQRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERTARKVYRTRDDARADVFDYIERFYNPRRRHSTLGYLSP
VEFEEQAMLA
SCGLHRIERLMRENGLRARPRRRGLPKDTGERAAVSDNLLDRAFEASAPNQKWVADFTYIWTAEGWIYVAAVVDLFSRRVVGWAMKAEMTAQLVTDALIM
AIWRRGKPDSLLHHSDQGSQYTSEQFQRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERTARKVYRTRDDARADVFDYIERFYNPRRRHSTLGYLSP
VEFEEQAMLA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1154 bp | 384 aa | 56 | 1209 | + | Yes |
Chemistry : DDE
ORF sequence :
MGMQRRKFSREFKLEAVRLIEDRGVAVAQAARDLDVHENVLRKWVRELSADPQRAFPGHGQMKPEQQEIDRLRKEVAKLKAERDILKKGRSLLREGSDMR
FAFIARHRNIWPVAWLCSALDVSRSGFHAWLNRSPSVRSQHDEILVSRIDRSFKSSDRTYGARRVWHDVLAEGLSCGLHRIERLMRENGLRARPRRRGLP
KDTGERAAVSDNLLDRAFEASAPNQKWVADFTYIWTAEGWIYVAAVVDLFSRRVVGWAMKAEMTAQLVTDALIMAIWRRGKPDSLLHHSDQGSQYTSEQF
QRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERTARKVYRTRDDARADVFDYIERFYNPRRRHSTLGYLSPVEFEEQAMLA
FAFIARHRNIWPVAWLCSALDVSRSGFHAWLNRSPSVRSQHDEILVSRIDRSFKSSDRTYGARRVWHDVLAEGLSCGLHRIERLMRENGLRARPRRRGLP
KDTGERAAVSDNLLDRAFEASAPNQKWVADFTYIWTAEGWIYVAAVVDLFSRRVVGWAMKAEMTAQLVTDALIMAIWRRGKPDSLLHHSDQGSQYTSEQF
QRLMADHGITCSMSRSGNVWDNAAMESFFSSLKTERTARKVYRTRDDARADVFDYIERFYNPRRRHSTLGYLSPVEFEEQAMLA
Blast result :
Comments
ISMlo4 is 69 % (ORFA) aa similar to ISDpr3 and 65% (ORFB) aa similar to ISPca2. The third ORF is a putative ORFAB transposase reconstructed in sillico by possible -1 frameshift.
References
1] Kaneko,T., Nakamura,Y., Sato,S., Asamizu,E., Kato,T., Sasamoto,S., Watanabe,A., Idesawa,K., Ishikawa,A., Kawashima,K., Kimura,T., Kishida,Y., Kiyokawa,C., Kohara,M., Matsumoto,M., Matsuno,A., Mochizuki,Y., Nakayama,S., Nakazaki,N., Shimpo,S., Sugimoto,M., Takeuchi,C., Yamada,M. and Tabata,S. (2001) Direct submission GenBank.