ISMno31

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_011894 ND Methylobacterium nodulans
Methylobacterium nodulans ORS 2060
DNA section
IS Length : 1510 bp

Ends


IR Length : 23/33

IRL : TGTCCGCCGTCAGCGCCCGTGAGACAGCTTGGGGCCTTTCACGACCGGAG
IRR : TGTCCGTCGTCAGATGATTTGAGACGGTTTGCGACGCTCAGGAGCGGAGG

Insertion site


Left flankDirect repeatRight flankDR Length
GGTATACCCCAACGAGAGGA0

DNA sequence

TGTCCGCCGTCAGCGCCCGTGAGACAGCTTGGGGCCTTTCACGACCGGAGGATGGCTGGTTCATCGTAGCCCCCAGGAGCGAAGATGAAGCAGACATCCG
GGCCGGCGCGGAAGCCGGCAGAGGCGGTGATCAAGGACATCCGCCGCGCCACGCGCCGGCCGTTCTCGGCCGAGGAGAAGATCCGCATCGTGCTGGAGGG
CCTGCGCGGCGAGGACAGCATCGCCGAGCTGTGCCGGCGTGAAGGCATCGCCACCTCGATGTACTACGGCTGGTCCAAGGAGTTTCTGGAGGCTGGCAAG
CGGCGGCTGGCCGGCGACACGGCCCGCGCTGCCACCGCCGATGAGGTCAAGGACCTGCGGCGCGAGGCCAGCGCGCTCAAGGAGGTTGTGGCCGATCTCA
CGCTGGAGAACCGCCTGCTCAAAAAAAGCATGAGCGGGGCTGGGGAGGACGGGGCATGAGGTACCCGGCCCCTGAGAAGCTGGAGATCATCCGGCTGGTC
GAGCAGTCCCACCTGCCGGTGCGCCGCACCCTGGAGAAGCTCGGCATCCCGCGCGCCACCTTCTACCGCTGGTACGACGCCTACCAGCGCGGTGGACCCG
AGGCCCTGGCCGACCGACCCTCTCGGCCCAGCCGGGTCTGGAACCGTCTGCCCGAGGAGGTCCGCGAGCAGATCGTCGCCCTCGCGCTGGAGCAGCCGGA
ACTCAGCCCACGCGAGCTGGCGGTGCGCTTCACCGACGAGCGGCAGTACTTCGTCTCGGAGGCGACGGTCTACCGTCTGCTCAAGGCACAGGACCTGATC
ACCAGCCCGGCCTACATCGTCGTCACGGCGGCCGACGAGTTCCGCGACACGACCACGGCCCCCAACCAGCTCTGGCAGACGGACTTCACCTCCCTGAAGG
TGGTCGGCTGGGGCTGGTACTACCTGTCGACGGTGCTCGACGACTACTCACGCTTCATCGTGGCCTGGAAGCTCTGCGCCACGATGCAGGCCAGCGACGT
CACCGCCACGCTCGACCTGGCGCTGAGCGCCGCCGGGCTCGATCAGGTGCAGGTCGTGCATCGGCCGCGGCTGCTGACCGACAACGGATCGAGCTACGTC
GCCGGTGACTTGGCCCCATGGCTCGGCAGTCGCGGCATGCCCCACATCCGCGGGGCCCCGCGCCATCCTCAGACCCAGGGCAAGATCGAGCGCTGGCATC
AGACGCTCAAGAACCGCATTCTGCTCGAACACGCCTACCTGCCCAGCGAACTGGAGGCGCGGGTCGCTGCCTTCGTCGAGCACTACAATCACGTCCGGGC
TCACGAAAGCCTCGGCAACCTCACGCCGGCCGACGTCTACTTCGGCCGCGGCGAGGCGATCCTGCGCGAGCGGGCGCGCATCAAACGCCAGACCCTCACC
GATCGCCGCTTGCGCCACCACGCGCAGGCTGCCTAACTTCTCAACCCAGATGGACCAGAGCCTCCGCTCCTGAGCGTCGCAAACCGTCTCAAATCATCTG
ACGACGGACA
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
375 bp124 aa85459+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKQTSGPARKPAEAVIKDIRRATRRPFSAEEKIRIVLEGLRGEDSIAELCRREGIATSMYYGWSKEFLEAGKRRLAGDTARAATADEVKDLRREASALKE
VVADLTLENRLLKKSMSGAGEDGA

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1092 bp363 aa3451436+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GQGPAARGQRAQGGCGRSHAGEPPAQKKHERGWGGRGMRYPAPEKLEIIRLVEQSHLPVRRTLEKLGIPRATFYRWYDAYQRGGPEALADRPSRPSRVWN
RLPEEVREQIVALALEQPELSPRELAVRFTDERQYFVSEATVYRLLKAQDLITSPAYIVVTAADEFRDTTTAPNQLWQTDFTSLKVVGWGWYYLSTVLDD
YSRFIVAWKLCATMQASDVTATLDLALSAAGLDQVQVVHRPRLLTDNGSSYVAGDLAPWLGSRGMPHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYLP
SELEARVAAFVEHYNHVRAHESLGNLTPADVYFGRGEAILRERARIKRQTLTDRRLRHHAQAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1352 bp450 aa851436+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKQTSGPARKPAEAVIKDIRRATRRPFSAEEKIRIVLEGLRGEDSIAELCRREGIATSMYYGWSKEFLEAGKRRLAGDTARAATADEVKDLRREASALKE
VVADLTLENRLLKKKHERGWGGRGMRYPAPEKLEIIRLVEQSHLPVRRTLEKLGIPRATFYRWYDAYQRGGPEALADRPSRPSRVWNRLPEEVREQIVAL
ALEQPELSPRELAVRFTDERQYFVSEATVYRLLKAQDLITSPAYIVVTAADEFRDTTTAPNQLWQTDFTSLKVVGWGWYYLSTVLDDYSRFIVAWKLCAT
MQASDVTATLDLALSAAGLDQVQVVHRPRLLTDNGSSYVAGDLAPWLGSRGMPHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYLPSELEARVAAFVEH
YNHVRAHESLGNLTPADVYFGRGEAILRERARIKRQTLTDRRLRHHAQAA

 

Blast result :
Comments
ISMno31 is 94% aa similar to ISMch3.
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] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Sims,D., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Marx,C.J. and Richardson,P. (2009) Direct submission GenBank.