ISMba2

  • Family IS1
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
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 flankDirect repeatRight flankDR Length
CGGAGAAACATGACTTTTCAATCTGCTTTTCAATCTGCTT8

DNA sequence

GGCTTTGGTAGTTAACTATAGTTATGTATAATGAGAACCTATATTTCTATATGAACTGCCCAAGGTGTAATAGTTCCACTCACAAAAAAAATGGTATAGT
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
LengthBeginEndStrandFusion ORF
354 bp117 aa51404+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MNCPRCNSSTHKKNGIVFGRQRYKCHDCGYNYTVEVKSTASSPSVKRQALQLYLEGLGFRSIGRFLGVSHISIQKWIKKFGQELEDLKSENEISIVEMDE
MHTYIGNKKIFLDLDCC

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
363 bp120 aa371733+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

QKNISGSGLLLIELGKKFINCSFGSRGTETGQLIWEKLKQKEIGEVMTDHWRAYAEFLPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKCYTKSIEM
LKYSVLLLMKHRNKEIAIIS

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
683 bp227 aa51733+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNCPRCNSSTHKKNGIVFGRQRYKCHDCGYNYTVEVKSTASSPSVKRQALQLYLEGLGFRSIGRFLGVSHISIQKWIKKFGQELEDLKSENEISIVEMDE
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.
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.