ISBad2

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008618 ND Bifidobacterium adolescentis
Bifidobacterium adolescentis ATCC 1573
DNA section
IS Length : 1470 bp

Ends


IR Length : 21/25

IRL : TGAACCGCACCCCGATTGTTGGACTGAAGAAATTCAGATTCGATGATCGG
IRR : TGAACTGCGCCCCGTTTGTTGGACGTTGTTAATTGGGATACAGGGTCAGA

Insertion site


Left flankDirect repeatRight flankDR Length
CCCGGCGTAAATAACCGCCGGGGCCTT3

DNA sequence

TGAACCGCACCCCGATTGTTGGACTGAAGAAATTCAGATTCGATGATCGGAGGTGCGGTTCTTTCGTATGCGTGAGGATCGAAGGAGACGTTACGACGAC
GGGTTCCGGCGCGAGGCGCTGGAGCTCATCAAGTCCGGAGCCGGCAAGGACACGCTCGCCAGAAGGCTTGCCATACCGGTGTATATCGCGAGAAACTGGA
TCGGGCTGTACAGGTCCAACGGCGAGGAGGCGGTCATGGGAGGCGGCGGCAGCAGACGCTACGACTGGGAGACGAAGGTCGCCGCGTCGCGCGACCACGT
CGAGAACGGTCTGACCAAGACGGAGGCCATGGCCAGGCACGGGATCGCGAGCATCGCGTCCCTGGAGCGCTGGTGCCGCGACTACCGGTCCGGAGGCGCT
CAGGCCGAAACCCAAGGGCAGGCCGAAAGGCGCGAAATCCAAACCGAAGCCCGAACCGACGCGCGAGCAGGAGCTCGCCGAACAGGTCGCGTACCTGAAG
GCGAAGGTCGCGTACCTGGAAAAACTCCGGGCCCTGCGGGCGTCCAAGTCACGCGGCGCGAGCGAAGCGCCGTCGTCCGACTGCTCGCAGGGCGGGGACA
CCGGCTCGACCACCTCCTGAGGATAGCCGGGCTGCCGAAATCCACGTACTACCACCACCTGTCGCGCCCGGCACACGTGTCCAGGCCGGACGTGGAGCCG
ATGGTACGGGAGATATGGGAGCGCACCCCGAACGGGTGCGGCCACCGGCAGGTGCGCATGTGCCTGGTCCACGAGTTCGGCACGCGCATATCCGCCAAGA
CCGTGCTCAGGGTCATGCGCCGTATGGGCTGAGATGCGCCATCCGCTCCAGGAACCCGTGGATACGCTACAGCTCGTACAGGGGCGAGACGGGCGACCGC
GTGCATAACCTGCCCGAACGCGACTTCGACGCGGCCCGTCCGTTCTCCAGGCTCGGCACCGACGTCACCGAGTTCAAGGTCGCCGGATCCAAGGCGTACC
TCGCTCCCGTGTACGACATGGCCAGCAAGGAGATCGTGGCCTGGGACGTGAGCCGCAGTCCGGACCTCGGTCAGCAGAAGCGTCTGCCCGCCATGCTCGC
GGAGCGCCTGCCCGCCGGCGCGGAGCCGATCCTGCACTCGGACATGGGATGGCAGTACCAGCACCAATGGTGGAGGAAGGAGCTCGAACGCCTCGGCATC
CGCCGGTCCATGAGCCGCAAGGGCAACTGCCTGGACAACGCGGCGGCCGAGCAGGTCTTCGGCCACTTGAAGGACGAGTTCTACCGCGGCCGTGTGTTCG
ACTCGTACGAACAGTTCAAACGCGAGCTGGACGCCTACATCATCCATTGGAACACCAGACGACGCCAGATACGACTCGAGGGACGCACCCCGGAGGAGTT
CCGGAGCATGTCCCTCGCGGTCTGACCCTGTATCCCAATTAACAACGTCCAACAAACGGGGCGCAGTTCA
Recoding section
  • Recoding by frameshift
  • Frame -1
  • Type translational
  • Experimentally demonstrated No

Stimulators :

  • Shine-Dalgarno sequence : No
  • Secondary structure : stem-loop

Recoding motif :

AAAAACTCCGGGCCCTGCGGGCGTCCAAGTCACGCGGCGCGAGCGAAGCG
-----------(((((((((((-----(((((((((((((-------)))
CCGTCGTCCGACTGCTCGCAGGGC
)))-)))--)))))))))))))))
Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
768 bp254 aa65832+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MREDRRRRYDDGFRREALELIKSGAGKDTLARRLAIPVYIARNWIGLYRSNGEEAVMGGGGSRRYDWETKVAASRDHVENGLTKTEAMARHGIASIASLE
RWCRDYRSGGAQAETQGQAERREIQTEARTDARAGARRTGRVPEGEGRVPGKTPGPAGVQVTRRERSAVVRLLAGRGHRLDHLLRIAGLPKSTYYHHLSR
PAHVSRPDVEPMVREIWERTPNGCGHRQVRMCLVHEFGTRISAKTVLRVMRRMG

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
927 bp308 aa4991425+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RRRSRTWKNSGPCGRPSHAARAKRRRPTARRAGTPARPPPEDSRAAEIHVLPPPVAPGTRVQAGRGADGTGDMGAHPERVRPPAGAHVPGPRVRHAHIRQ
DRAQGHAPYGLRCAIRSRNPWIRYSSYRGETGDRVHNLPERDFDAARPFSRLGTDVTEFKVAGSKAYLAPVYDMASKEIVAWDVSRSPDLGQQKRLPAML
AERLPAGAEPILHSDMGWQYQHQWWRKELERLGIRRSMSRKGNCLDNAAAEQVFGHLKDEFYRGRVFDSYEQFKRELDAYIIHWNTRRRQIRLEGRTPEE
FRSMSLAV

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1361 bp453 aa651425+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MREDRRRRYDDGFRREALELIKSGAGKDTLARRLAIPVYIARNWIGLYRSNGEEAVMGGGGSRRYDWETKVAASRDHVENGLTKTEAMARHGIASIASLE
RWCRDYRSGGAQAETQGQAERREIQTEARTDARAGARRTGRVPEGEGRVPGKKNSGPCGRPSHAARAKRRRPTARRAGTPARPPPEDSRAAEIHVLPPPV
APGTRVQAGRGADGTGDMGAHPERVRPPAGAHVPGPRVRHAHIRQDRAQGHAPYGLRCAIRSRNPWIRYSSYRGETGDRVHNLPERDFDAARPFSRLGTD
VTEFKVAGSKAYLAPVYDMASKEIVAWDVSRSPDLGQQKRLPAMLAERLPAGAEPILHSDMGWQYQHQWWRKELERLGIRRSMSRKGNCLDNAAAEQVFG
HLKDEFYRGRVFDSYEQFKRELDAYIIHWNTRRRQIRLEGRTPEEFRSMSLAV

 

Blast result :
Comments
ISBad2 is 61% aa similar to ISBlo3.
The third ORF is the putative ORFAB transposase reconstructed in siclio by possible -1 frameshift.
References
1] Suzuki,T., Tsuda,Y., Kanou,N., Inoue,T., Kumazaki,K., Nagano,S., Hirai,S., Tanaka,K. and Watanabe,K.(2006) Direct submission GenBank.