ISMba2
- Family IS1
- Group
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_007355 | ND | Methanosarcina barkeri | Methanosarcina barkeri fusaro |
DNA section
IS Length : 740 bp
Ends
IR Length : 18/25
IRL : GGCTTTGGTAGTTAACTATAGTTATGTATAATGAGAACCTATATTTCTAT
IRR : GGTATTGTTAACTAATTATAGCTATCTCTTTATTTCTATGTTTCATCAAT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CGGAGAAACATGACTTTT | CAATCTGC | TTTTCAATCTGCTT | 8 |
DNA sequence
GGCTTTGGTAGTTAACTATAGTTATGTATAATGAGAACCTATATTTCTATATGAACTGCCCAAGGTGTAATAGTTCCACTCACAAAAAAAATGGTATAGT
TTTTGGACGTCAACGCTACAAATGCCATGATTGTGGATATAACTATACCGTAGAGGTAAAATCAACTGCTAGCTCCCCTTCTGTTAAGAGACAGGCTTTG
CAACTCTATCTTGAAGGGTTAGGATTTCGCTCAATAGGACGATTTTTAGGAGTAAGTCATATTTCTATCCAAAAATGGATAAAGAAATTTGGTCAGGAGT
TGGAGGACCTAAAAAGCGAAAATGAGATATCTATTGTTGAAATGGATGAGATGCACACTTACATCGGTAACAAAAAAATATTTCTGGATCTGGATTGCTG
TTGATAGAGTTAGGAAAAAAATTCATCAACTGCTCTTTTGGCAGCAGAGGAACGGAAACTGGACAACTAATATGGGAAAAATTAAAGCAAAAAGAGATTG
GAGAAGTGATGACAGATCACTGGAGAGCATATGCAGAGTTTCTTCCAGAAAATATTCATACTCAATCCAAAGCCGAAACATATACAGTTGAAGGATATAA
CGGCATATTGAGGCACTTTCTGGCAAGGTTGAGACGAAAGACAAAATGTTATACGAAGAGTATTGAAATGCTAAAGTACTCTGTTCTTCTATTGATGAAA
CATAGAAATAAAGAGATAGCTATAATTAGTTAACAATACC
TTTTGGACGTCAACGCTACAAATGCCATGATTGTGGATATAACTATACCGTAGAGGTAAAATCAACTGCTAGCTCCCCTTCTGTTAAGAGACAGGCTTTG
CAACTCTATCTTGAAGGGTTAGGATTTCGCTCAATAGGACGATTTTTAGGAGTAAGTCATATTTCTATCCAAAAATGGATAAAGAAATTTGGTCAGGAGT
TGGAGGACCTAAAAAGCGAAAATGAGATATCTATTGTTGAAATGGATGAGATGCACACTTACATCGGTAACAAAAAAATATTTCTGGATCTGGATTGCTG
TTGATAGAGTTAGGAAAAAAATTCATCAACTGCTCTTTTGGCAGCAGAGGAACGGAAACTGGACAACTAATATGGGAAAAATTAAAGCAAAAAGAGATTG
GAGAAGTGATGACAGATCACTGGAGAGCATATGCAGAGTTTCTTCCAGAAAATATTCATACTCAATCCAAAGCCGAAACATATACAGTTGAAGGATATAA
CGGCATATTGAGGCACTTTCTGGCAAGGTTGAGACGAAAGACAAAATGTTATACGAAGAGTATTGAAATGCTAAAGTACTCTGTTCTTCTATTGATGAAA
CATAGAAATAAAGAGATAGCTATAATTAGTTAACAATACC
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 | |
---|---|---|---|---|---|
354 bp | 117 aa | 51 | 404 | + | No |
Description : First part of the transposase
ORF sequence :
MNCPRCNSSTHKKNGIVFGRQRYKCHDCGYNYTVEVKSTASSPSVKRQALQLYLEGLGFRSIGRFLGVSHISIQKWIKKFGQELEDLKSENEISIVEMDE
MHTYIGNKKIFLDLDCC
MHTYIGNKKIFLDLDCC
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
363 bp | 120 aa | 371 | 733 | + | No |
Description : Second part of the transposase
ORF sequence :
QKNISGSGLLLIELGKKFINCSFGSRGTETGQLIWEKLKQKEIGEVMTDHWRAYAEFLPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKCYTKSIEM
LKYSVLLLMKHRNKEIAIIS
LKYSVLLLMKHRNKEIAIIS
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
683 bp | 227 aa | 51 | 733 | + | Yes |
Chemistry : DDE
ORF sequence :
MNCPRCNSSTHKKNGIVFGRQRYKCHDCGYNYTVEVKSTASSPSVKRQALQLYLEGLGFRSIGRFLGVSHISIQKWIKKFGQELEDLKSENEISIVEMDE
MHTYIGNKKNISGSGLLLIELGKKFINCSFGSRGTETGQLIWEKLKQKEIGEVMTDHWRAYAEFLPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKC
YTKSIEMLKYSVLLLMKHRNKEIAIIS
MHTYIGNKKNISGSGLLLIELGKKFINCSFGSRGTETGQLIWEKLKQKEIGEVMTDHWRAYAEFLPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKC
YTKSIEMLKYSVLLLMKHRNKEIAIIS
Blast result :
Comments
The third ORF is isnAB (fusion in silico).
ISMba2 is 95% aa simialr to ISMma7 (insAB). There are 5 complete copies in Methanosarcina barkeri str. fusaro genome.
ISMba2 is 95% aa simialr to ISMma7 (insAB). There are 5 complete copies in Methanosarcina barkeri str. fusaro genome.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S., Goodwin,L.A., Saunders,E.H., Schmutz,J., Larimer,F., Land,M., Anderson,I. and Richardson,P. (2005) Direct submission GenBank.