ISMra2

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_010505 ND Methylobacterium radiotolerans
Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01
Methylobacterium radiotolerans JCM 2831
DNA section
IS Length : 905 bp

Ends


IR Length : 14

IRL : GGCGTCTCTGCAAAGGGTTCACAGGCCGCGGGATCGGCCCCATGTGGGCC
IRR : GGCGTCTCTGCAAACTCATGTGAGCCAGAGCATGGTCATGCCGAGGGTGA

Insertion site


Left flankDirect repeatRight flankDR Length
GCTCGGTCCGCTAGTAGACCTGAG4
ATGTTGGCGCCTAGCCGGATCTTC4
ACGATCTCGACTAGTCTGTCGAGT4

DNA sequence

GGCGTCTCTGCAAAGGGTTCACAGGCCGCGGGATCGGCCCCATGTGGGCCTGATGCGACGCTTTGAACTGACTGACGCGCAGTGGGAGCAGATCGCCCCG
CTGCTGCCTCCGCAGAAGCCGCGCACGGGCCGGCCCGCCGAGGATCACCGCCAAGTGCTCAACGGCATGCTCTGGATCCTGCGTACCGGTGCTCCCTGGG
AGGACCTGCCGGCCCGCTACGGGGCGGTCGGAACCGTGTCGAGCCGGTTCTACCGGTGGCGCAAGGCGGGCGTGTTCGACCGGGTGCTGCAGCGCCTGCA
GGCGCAGGCGGACGCCCGCGGCGCCCTGGACTGGGATCTGCACTTCGTGGACGCCACGGTGGTGCGCGCCCACCAGCACGCCGCCGGGGCACGCCGGTCC
GGCGCCATCGGGGGGTGAGGCGACCGTCGAGGGCGTGGGCGAAGCGCTCGGGCGCAGCCAGGGCGGGTTCTCCACCAAGCTGCATCTGCGCGCCGAGGGC
GGCGGCAAGCCGATCGCGGCGGTGCTGACGGCCGGCGAAAGGCACGAGCAGTTCGCACTGGACGCCTTGATGGACAAGGGCGCGGTGCCACGTCCAGGGC
GAGGCCGCCCGCGCCTGCGGCCCCGTAGGACGGCAGGGGACCGGGGTTACTCCAGTCCGCCGGCGCGTTGTCGCCTCAGGCAGCGTCGGATCGAGCCGGT
CATCCCGACCCGCAAGGACCAGCCGCGTCAGCCCGACTTTGACAAGGCCGCGTACCGCGAGCGCAACAAGGTCGAGCGGCTGATCAACCGCCTCAAGCAG
TATCGCCGCATCGCCACCCGCTACGAGAAGCGGGCTGCCAACTACCTCGCCATGGTCACCCTCGGCATGACCATGCTCTGGCTCACATGAGTTTGCAGAG
ACGCC
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
366 bp121 aa53418+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRRFELTDAQWEQIAPLLPPQKPRTGRPAEDHRQVLNGMLWILRTGAPWEDLPARYGAVGTVSSRFYRWRKAGVFDRVLQRLQAQADARGALDWDLHFVD
ATVVRAHQHAAGARRSGAIGG

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
588 bp195 aa303890+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RRRTPAAPWTGICTSWTPRWCAPTSTPPGHAGPAPSGGEATVEGVGEALGRSQGGFSTKLHLRAEGGGKPIAAVLTAGERHEQFALDALMDKGAVPRPGR
GRPRLRPRRTAGDRGYSSPPARCRLRQRRIEPVIPTRKDQPRQPDFDKAAYRERNKVERLINRLKQYRRIATRYEKRAANYLAMVTLGMTMLWLT

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
838 bp278 aa53890+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRRFELTDAQWEQIAPLLPPQKPRTGRPAEDHRQVLNGMLWILRTGAPWEDLPARYGAVGTVSSRFYRWRKAGVFDRVLQRLQAQADARGALDWDLHFVD
ATVVRAHQHAAGARRSGAIGGEATVEGVGEALGRSQGGFSTKLHLRAEGGGKPIAAVLTAGERHEQFALDALMDKGAVPRPGRGRPRLRPRRTAGDRGYS
SPPARCRLRQRRIEPVIPTRKDQPRQPDFDKAAYRERNKVERLINRLKQYRRIATRYEKRAANYLAMVTLGMTMLWLT

 

Blast result :
Comments
ISMra2 is 61% aa similar to IS1650.
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] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kiss,H., Brettin,T., Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Marx,C.J. and Richardson,P. (2008) Direct submission Genbank.