ISBam2

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NZ_AAUZ01000001.1 ND Burkholderia ambifaria
Burkholderia ambifaria MC40-6
DNA section
IS Length : 1110 bp

Ends


IR Length : 38/49

IRL : TGACCTGCCCCCTACAAACAGGGCCAGCCGGAGTCTAGTAAAGTTCGTTT
IRR : TGACCTGCCCCCTTCAATAGGGCCAATGGGCTTCTAGCAAAGTCCCTTTA

Insertion site


Left flankDirect repeatRight flankDR Length
TAATTTGTTGGCAATGCCTT0

DNA sequence

TGACCTGCCCCCTACAAACAGGGCCAGCCGGAGTCTAGTAAAGTTCGTTTTCGGAGAAGAAGACGAACATGAAGAAGCGCTTTACGGAACAGCAAATCAT
CGGGTTTCTGAAGGAAGCGGAAGCCGGCATGCCGGTCAAGGAACTGTGCAGGAGGCACGGGTTCAGTGACGCGTCGTTCTACACGTGGCGCGCAAAGTTC
GGCGGCATGGAAGTCTCGGAAGCCCGCCGGCTCAAGGACCTCGAGGTGGAGAATGCCCGGCTGAAGAAACTGCTGGCCGAAGCAATGCTCGACATGGAAG
CGTTGAAGGTCGTCGTCAAGGGAAAGCCCTGAGCCCGCAAGCCAAACGCGAAGCAGTGTCGGCGATTCGGGAGAAGGTCAACATCTCCGAGCGCCGCGCC
TGCCGGCTTGTCGGGCTATCTCGCAGCGTGCTGCATTACGACAAGCGCATCTATTGCCTGTACCGTGAGGCAGGGCTGGCTGTGCGGCGCCGTCGCAAGC
GCCAGGGCGTCATGATTGAGCGCGAGCAACTGGCATTGCCGGGCGCGCCCAACGAGGTGTGGTCAATCGATTTCGTGATGGACGCGCTTTCCAACGGCCG
GCGCGTGAAGTGCCTGACCGTCGTCGACGACTTCACGAAAGAGGCTGTCGACATCGTCGTCGACCATGGCATCTCAGGTTTGTATGTCGCTCGGGCATTG
GACCGTGCAGCTCGCTTCCGTGGCTATCCCAAGGCAGTGCGAACAGACCAGGGCCCCGAATTTACGAGCCGCGCGCTTGACCAGTGGGCGTATGCGAACG
GCGTCACACTGAAGTTGATTCAGGCGGGCAAGCCAACGCAGAATGCGTACATCGAATCGTTCAACGGCAAGTTCCGCGACGAATGCCTTAATGAGCACTG
GTTCACGACGCTCGCGCACGCTCGGGCTGTCATCGCGGCATGGCGTCAGGACTACAACGAGCAAAGGCCGCACAGCGCACTGAACTACCTTGCGCCGTCA
GAGTTTGCGGCGAAACATCGGGCAACCGCGGATGCTCCTGCCGCTTTCCAGGAGTTGGTTTAAAGGGACTTTGCTAGAAGCCCATTGGCCCTATTGAAGG
GGGCAGGTCA
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
264 bp87 aa69332+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKKRFTEQQIIGFLKEAEAGMPVKELCRRHGFSDASFYTWRAKFGGMEVSEARRLKDLEVENARLKKLLAEAMLDMEALKVVVKGKP

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
894 bp297 aa1701063+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RVVLHVARKVRRHGSLGSPPAQGPRGGECPAEETAGRSNARHGSVEGRRQGKALSPQAKREAVSAIREKVNISERRACRLVGLSRSVLHYDKRIYCLYRE
AGLAVRRRRKRQGVMIEREQLALPGAPNEVWSIDFVMDALSNGRRVKCLTVVDDFTKEAVDIVVDHGISGLYVARALDRAARFRGYPKAVRTDQGPEFTS
RALDQWAYANGVTLKLIQAGKPTQNAYIESFNGKFRDECLNEHWFTTLAHARAVIAAWRQDYNEQRPHSALNYLAPSEFAAKHRATADAPAAFQELV

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
995 bp330 aa691063+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

KKRFTEQQIIGFLKEAEAGMPVKELCRRHGFSDASFYTWRAKFGGMEVSEARRLKDLEVENARLKKLLAEAMLDMEALKVVVKGKALSPQAKREAVSAIR
EKVNISERRACRLVGLSRSVLHYDKRIYCLYREAGLAVRRRRKRQGVMIEREQLALPGAPNEVWSIDFVMDALSNGRRVKCLTVVDDFTKEAVDIVVDHG
ISGLYVARALDRAARFRGYPKAVRTDQGPEFTSRALDQWAYANGVTLKLIQAGKPTQNAYIESFNGKFRDECLNEHWFTTLAHARAVIAAWRQDYNEQRP
HSALNYLAPSEFAAKHRATADAPAAFQELV

 

Blast result :
Comments
ISBam2 is 100% (ORFA) and 85% (ORFB) aa similar to IS407.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Pitluck,S. and Richardson,P. (2006) Direct submission GenBank.