ISMex1

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Methylobacterium extorquens
Methylobacterium extorquens AM1
DNA section
IS Length : 1200 bp

Ends


IR Length : 15

IRL : TGACCTTGCCCCCTGGCCTGCCCTCATTCTGAAGCTAGGGTCCGTCGAGC
IRR : TGACCTTGCCCCCTGTTTGCCCCCGTTCATAACCAGAGTCCGTTCTGGTT

Insertion site


Left flankDirect repeatRight flankDR Length
GGAGTTCTGCCTCCAGATCG0
CGGGCTCTCCACTCATTAGA0
AGCGGTCTGCCTGGTTCTGGATGC4
ACCCTGATCCAGGCCCTCTGCTAA4
CGAAGCCTCCAACAGGGGGC0
GCGAAGCCCCCTGTGTCTGC0
CCGTACCGTGGGTCGGATCT0
CGGCCTTCACCTACGACCTGCGCC4
AGGGGCAGGCTGGCCGGCGCGGAT4
ACATCGATGAGGCTCCAGCCGGGG4
CTCAGGCGCGCGGTAGATCCGTGA4
GGAGGACGACCCAGCAGGGC0
GAAATCGCGTCAGCGCTTGC0
CGCTGACCACCGCCAACCAT0
GCCCCCTGTTGGACGACCGC0
CGAGGCATCCCGTCCCCCGC0
CCATCCGATGGGTGGCCCTG0
TAACGGGTGCGTCGGGTCAA0
CTCGGCTTACCGGCTAGTTCAGCA4
TCTCCTGGAGCGTCGACATGATGG4
TCTCGGGCTCGCCCTCACTGCCAC4
TCTCGACAACGCGGCCACACACAA4
CAAGCGCTCTGCGGCGTTCG0
CCCAAGTAACGAACGCTCAT0
CCCGCTGACAAACAGGGGGC0
GGTTCGAAACCCGCGTCTGTCATG4
CCCACGATACGCTTGTATGCCCAA4
GGGCAGCTGAAACGGCTTCA0
CGAGCCATACGAGATAATCTGCGA4
GCCCCCTGTTCTGGACGACC0
TGCTGGGGCATCAGGTTTTGAGCC4
GCAGCCCCAGGCGTCACTGAGCCA4
CGCTAGACCCAACAGGGGGC0
TATGGTATGCTCTCGCATCTGCGG4
CGATATCCCTACAGCTCGGC0
CGCCCCTGGCCCATGGACGA0
TGGTGCTTGGCGAAGCCTCC0

DNA sequence

TGACCTTGCCCCCTGGCCTGCCCTCATTCTGAAGCTAGGGTCCGTCGAGCAGGAGACGGACGATGAAGAAGAGCCGGTTTAGCGAAGAGCAGATCATCGG
CATCCTGAAGGAGCAGCAGGCTGGGCTGCCGGTGGCTGAGATCTGTCGCCGCCACGGCATCAGCGACGCGACGTTCTACACGTGGCGCTCGCGCTTCGGC
GGCATGGAGGTCTCGGACGCGCGGCGTCTGAAGGCGCTCGATGAGGAGAACCGCAAGCTCAAGAAGCTCCTGGCCGAGGCGATGCTCGACGTGGCCACGC
TGCGTGAGGCGCTGGGAAAAAACTTCTGACGCCCGGCGCACGGAGAACGGCCGTGAGCTGGGCCATCGAGGAGAAAGGTTATTCGCAGCGTCGTGCCTGC
GGGCTGATCGGCCTTGAGCCGAAGACGTACCGCTACGCCTCGACCCGTGGTGACGACGCGGCTGTGCGGGTGCGCCTGCGCGGCCTGGCCGGCGAGCGCC
GCCGGTTCGGCTACCGGCGCCTGCTCATCCTACTGCGGCGGGAGGGCCTCGCTCTCAACCACAAGAAGCTCTTCCGGCTCTACCGAGAGGAGCGGCTGTC
GGTGCGCAAGCGCGGAGGTCGCAAGCGAGCACTTGGCACGCGAGCGCCCGCCGCGGTGCCGCAGGAGCCGAACCAGCGCTGGAGCCTCGACTTCGTCTCC
GACACGCTCGACGACGGGCGGCGCTTCCGCATCCTCGTCGTGGTCGATGACTGCACGCGGGAGTGCCTGGCGCTGGTGGTCGACACGTCGCTGTCCGGGC
GGCGGGTCACGCGTGAACTCGACCGGATCATCAAGGGCCGGGGCAAGCCGCTGATGATCGTCTCGGACAACGGCACCGAGCTGACCTCGCACGCCATCCT
GCGCTGGCAGGAGGAGCGTGCGGTCGAGTGGCATTACATCGCGCCCGGCAAGCCGCAGCAGAACGGTTTTGTCGAGAGCTTGAACGGGCGCTTGCGCGAC
GAGTGCCTGAACGAGCATCTGTTCCGGAGCCTGCCGGCGGCCCGGACCATCATCGAGGCGTGGCGGGTCGACTATAACACCTGCCGCCCCCACACGAGCC
TCGGCGGGCTCACCCCGAACGCGTTTGCAACCCGGTCCCGACAGGACCAGAACCAGAACGGACTCTGGTTATGAACGGGGGCAAACAGGGGGCAAGGTCA
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
267 bp88 aa63329+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKKSRFSEEQIIGILKEQQAGLPVAEICRRHGISDATFYTWRSRFGGMEVSDARRLKALDEENRKLKKLLAEAMLDVATLREALGKNF

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
867 bp288 aa3081174+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GAGKKLLTPGARRTAVSWAIEEKGYSQRRACGLIGLEPKTYRYASTRGDDAAVRVRLRGLAGERRRFGYRRLLILLRREGLALNHKKLFRLYREERLSVR
KRGGRKRALGTRAPAAVPQEPNQRWSLDFVSDTLDDGRRFRILVVVDDCTRECLALVVDTSLSGRRVTRELDRIIKGRGKPLMIVSDNGTELTSHAILRW
QEERAVEWHYIAPGKPQQNGFVESLNGRLRDECLNEHLFRSLPAARTIIEAWRVDYNTCRPHTSLGGLTPNAFATRSRQDQNQNGLWL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1112 bp370 aa631174+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKKSRFSEEQIIGILKEQQAGLPVAEICRRHGISDATFYTWRSRFGGMEVSDARRLKALDEENRKLKKLLAEAMLDVATLREALGKKLLTPGARRTAVSW
AIEEKGYSQRRACGLIGLEPKTYRYASTRGDDAAVRVRLRGLAGERRRFGYRRLLILLRREGLALNHKKLFRLYREERLSVRKRGGRKRALGTRAPAAVP
QEPNQRWSLDFVSDTLDDGRRFRILVVVDDCTRECLALVVDTSLSGRRVTRELDRIIKGRGKPLMIVSDNGTELTSHAILRWQEERAVEWHYIAPGKPQQ
NGFVESLNGRLRDECLNEHLFRSLPAARTIIEAWRVDYNTCRPHTSLGGLTPNAFATRSRQDQNQNGLWL

 

Blast result :
Comments
ISMex1 is 85% aa similar to ISGdi11. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References