ISMco1
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_015416 | ND | Methanosaeta concilii | Methanosaeta concilii GP6 |
DNA section
IS Length : 1296 bp
Ends
IR Length : 32/40
IRL : TGGAGTGAACCCCTCCGAGTGGACAAAAAGTTAAGCAATGCCGACTCATG
IRR : TGGACTGCACCCCTGATAATGGACAAATAGTTAAGCAATGGTATTTAAGG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GACTTGGCAG | CCAATCTCTC | 0 | |
| AGATACACCA | CAGATTCGTC | 0 | |
| AACAGCGTTG | ATACCATTGC | 0 | |
| AATCGCGATG | GTC | AATGTGTTGT | 3 |
| TCTAGCGTTG | CGTT | TCAATTCCCT | 4 |
| ATAGACAAGG | TAGG | CGAAGTTAAG | 4 |
| GCTGGAAAAG | TTGGGAAAGC | 0 | |
| GACGATGATA | CATTGCAGGA | 0 |
DNA sequence
TGGAGTGAACCCCTCCGAGTGGACAAAAAGTTAAGCAATGCCGACTCATGGAGGGAAGTGCATGAAGAAGACCAGGCGGCGTTACGACCGGGACTTCAAG
ATATCAGTATTAGCCGAACTTGAGGCAGGCAAGCCACTTGCTCAGATCGCCCGCGAATATGGCATCCATCCGAGTCTTCCTTGCCGATGGAAGGCAGAGC
TGGCTGAAAATCCCGAAAAAGCATTCATGGGTAACGGAAACAAGTACAAAGATCAGGCGAAGATTGCAGAATTGGAGAGACTTCTGGGCCAGGCTCATGC
TGAAATTGACCTTTTAAAAAAAGCCTTCGCCATGACCCAGAAGAAGGTCCGCGAGGAGAGACGAAAGCCGATGTTGAGGGACGACATATGATCATTCAGG
AAGCTCAATCAGATGGCCTTCTGTTGCCAATATCTCACTCCTGCTTGGCGCTGGATGTGAGTCGCAGCGGTTACTACGAGTGGTTGAAGCGGTCCGAAAA
GTTCACTGCGGAGAATAGCGAATCTTCGGATCTGGTTAACCAGATTCAAGAGATAGCTTTGGAGTTTCCTTATTACGGGTACAGGAGAATTACAGCAGAA
CTTCAAAATCGCGGCTATGCGGTCAACCATAAGCGCGTGCTGAGGCTCATGCGCCAGGAGAAGTTGCTTTGCTATAAGAAGAAGTTCAAGCCGGTAACAA
CCGATTCCACTCATGGTCTGCCGGTCTATCCTAACCTTCTAAAAGGCAGGGAAATCACGGGACTGAACCAGGCATGGGCTTCTGATATCACTTATGTCCA
GCTGCAGCACGAGCATATCTTTCTCGCGGTTATCCTGGATCTCTACAGCAGAAAGTGCATCGGGTGGGAGCTGAGCAGGAGCATAAGAAGCGATCTGGCC
ATGAGTGCTCTGGCAAAGGCATTGAAGAACCGTTCCAAGGAATCCCTTGAGGGTCTTATTCATCATTCTGATCAAGGCGTTCAGTATGCGTCCAAGGATT
ATGTAGACTGTCTTAAGGCGCATGACATCCAGATCAGCATGTCGAGAAAAGGAAATCCTTATGACAATGCTTTTGCTGAGAGTTTTATAAAAACACTGAA
GGTCGAGGAGGTATATCTCAATGAATATGAGACATTTGAAGATGCATTCAGGAACATATGCAACTTTATTGAAAATGTGTACAACCATAAGAGGCTGCAT
TCAGCTCTCAATTACAGATCTCCGGTTCAGTTCGAAGTGGAGGTTGCCTTAAATACCATTGCTTAACTATTTGTCCATTATCAGGGGTGCAGTCCA
ATATCAGTATTAGCCGAACTTGAGGCAGGCAAGCCACTTGCTCAGATCGCCCGCGAATATGGCATCCATCCGAGTCTTCCTTGCCGATGGAAGGCAGAGC
TGGCTGAAAATCCCGAAAAAGCATTCATGGGTAACGGAAACAAGTACAAAGATCAGGCGAAGATTGCAGAATTGGAGAGACTTCTGGGCCAGGCTCATGC
TGAAATTGACCTTTTAAAAAAAGCCTTCGCCATGACCCAGAAGAAGGTCCGCGAGGAGAGACGAAAGCCGATGTTGAGGGACGACATATGATCATTCAGG
AAGCTCAATCAGATGGCCTTCTGTTGCCAATATCTCACTCCTGCTTGGCGCTGGATGTGAGTCGCAGCGGTTACTACGAGTGGTTGAAGCGGTCCGAAAA
GTTCACTGCGGAGAATAGCGAATCTTCGGATCTGGTTAACCAGATTCAAGAGATAGCTTTGGAGTTTCCTTATTACGGGTACAGGAGAATTACAGCAGAA
CTTCAAAATCGCGGCTATGCGGTCAACCATAAGCGCGTGCTGAGGCTCATGCGCCAGGAGAAGTTGCTTTGCTATAAGAAGAAGTTCAAGCCGGTAACAA
CCGATTCCACTCATGGTCTGCCGGTCTATCCTAACCTTCTAAAAGGCAGGGAAATCACGGGACTGAACCAGGCATGGGCTTCTGATATCACTTATGTCCA
GCTGCAGCACGAGCATATCTTTCTCGCGGTTATCCTGGATCTCTACAGCAGAAAGTGCATCGGGTGGGAGCTGAGCAGGAGCATAAGAAGCGATCTGGCC
ATGAGTGCTCTGGCAAAGGCATTGAAGAACCGTTCCAAGGAATCCCTTGAGGGTCTTATTCATCATTCTGATCAAGGCGTTCAGTATGCGTCCAAGGATT
ATGTAGACTGTCTTAAGGCGCATGACATCCAGATCAGCATGTCGAGAAAAGGAAATCCTTATGACAATGCTTTTGCTGAGAGTTTTATAAAAACACTGAA
GGTCGAGGAGGTATATCTCAATGAATATGAGACATTTGAAGATGCATTCAGGAACATATGCAACTTTATTGAAAATGTGTACAACCATAAGAGGCTGCAT
TCAGCTCTCAATTACAGATCTCCGGTTCAGTTCGAAGTGGAGGTTGCCTTAAATACCATTGCTTAACTATTTGTCCATTATCAGGGGTGCAGTCCA
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 | |
|---|---|---|---|---|---|
| 330 bp | 109 aa | 62 | 391 | + | No |
Description : First part of the transposase
ORF sequence :
MKKTRRRYDRDFKISVLAELEAGKPLAQIAREYGIHPSLPCRWKAELAENPEKAFMGNGNKYKDQAKIAELERLLGQAHAEIDLLKKAFAMTQKKVREER
RKPMLRDDI
RKPMLRDDI
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 957 bp | 318 aa | 310 | 1266 | + | No |
Description : Second part of the transposase
ORF sequence :
PFKKSLRHDPEEGPRGETKADVEGRHMIIQEAQSDGLLLPISHSCLALDVSRSGYYEWLKRSEKFTAENSESSDLVNQIQEIALEFPYYGYRRITAELQN
RGYAVNHKRVLRLMRQEKLLCYKKKFKPVTTDSTHGLPVYPNLLKGREITGLNQAWASDITYVQLQHEHIFLAVILDLYSRKCIGWELSRSIRSDLAMSA
LAKALKNRSKESLEGLIHHSDQGVQYASKDYVDCLKAHDIQISMSRKGNPYDNAFAESFIKTLKVEEVYLNEYETFEDAFRNICNFIENVYNHKRLHSAL
NYRSPVQFEVEVALNTIA
RGYAVNHKRVLRLMRQEKLLCYKKKFKPVTTDSTHGLPVYPNLLKGREITGLNQAWASDITYVQLQHEHIFLAVILDLYSRKCIGWELSRSIRSDLAMSA
LAKALKNRSKESLEGLIHHSDQGVQYASKDYVDCLKAHDIQISMSRKGNPYDNAFAESFIKTLKVEEVYLNEYETFEDAFRNICNFIENVYNHKRLHSAL
NYRSPVQFEVEVALNTIA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1205 bp | 409 aa | 62 | 1266 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKTRRRYDRDFKISVLAELEAGKPLAQIAREYGIHPSLPCRWKAELAENPEKAFMGNGNKYKDQAKIAELERLLGQAHAEIDLLKKAFAMTQKKSLRHD
PEEGPRGETKADVEGRHMIIQEAQSDGLLLPISHSCLALDVSRSGYYEWLKRSEKFTAENSESSDLVNQIQEIALEFPYYGYRRITAELQNRGYAVNHKR
VLRLMRQEKLLCYKKKFKPVTTDSTHGLPVYPNLLKGREITGLNQAWASDITYVQLQHEHIFLAVILDLYSRKCIGWELSRSIRSDLAMSALAKALKNRS
KESLEGLIHHSDQGVQYASKDYVDCLKAHDIQISMSRKGNPYDNAFAESFIKTLKVEEVYLNEYETFEDAFRNICNFIENVYNHKRLHSALNYRSPVQFE
VEVALNTIA
PEEGPRGETKADVEGRHMIIQEAQSDGLLLPISHSCLALDVSRSGYYEWLKRSEKFTAENSESSDLVNQIQEIALEFPYYGYRRITAELQNRGYAVNHKR
VLRLMRQEKLLCYKKKFKPVTTDSTHGLPVYPNLLKGREITGLNQAWASDITYVQLQHEHIFLAVILDLYSRKCIGWELSRSIRSDLAMSALAKALKNRS
KESLEGLIHHSDQGVQYASKDYVDCLKAHDIQISMSRKGNPYDNAFAESFIKTLKVEEVYLNEYETFEDAFRNICNFIENVYNHKRLHSALNYRSPVQFE
VEVALNTIA
Blast result :
Comments
ISMco1 is 54% aa similar to ISCce4. The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] ISfinder annotation (2011)
2] Barber,R.D., Zhang,L., Harnack,M., Olson,M.V., Kaul,R., Ingram-Smith,C. and Smith,K.S. (2011) J. Bacteriol. 193 (14), 3668-3669.
2] Barber,R.D., Zhang,L., Harnack,M., Olson,M.V., Kaul,R., Ingram-Smith,C. and Smith,K.S. (2011) J. Bacteriol. 193 (14), 3668-3669.