ISRde2

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008209 ND Roseobacter denitrificans
Roseobacter denitrificans OCh 114
DNA section
IS Length : 1203 bp

Ends


IR Length : 38/46

IRL : TGACCTGCTCCCCTGAAAAGTCCTCGAATTTTGGTTAGCCTGTTCTCCAA
IRR : TGACCTGCTCCCCTGAGAGTCCGCTACTTTAGGTTAGCACTGTTCAGGTT

Insertion site


Left flankDirect repeatRight flankDR Length
CGATTGCCGGATTGGAGAAAGGTA4

DNA sequence

TGACCTGCTCCCCTGAAAAGTCCTCGAATTTTGGTTAGCCTGTTCTCCAACTGAGGAGACAGACGATGAAGAGAAGCCGTTTCAGCGAAGAGCAGATCAT
TGGCATTTTGAAAGAGCACCAGGCCGGGCTTGGCGCGAAAGAGCTGTGCCGCAAGCATGGGATCAGCGATGCGACTTTTTACAAGTGGCGATCCAAGTAT
GGCGGCATGGAAGTGTCCGACGCACGGCGGCTCAAGACGCTTGAAAGCGAGAACACCAAACTGAAGAAGATGCTGGCCGAGCAGATGATGGACGTGGCGA
CGCTGAAAGAGATGCTCGGAAAAAACTTCTGAGGCCCGGTTCGAGGAGGAATGCTGTGAACTGGGCCATGAAGACCAAGGGCTACAATCAGAAACGGGCC
TGTTCCTTGGCCGGGATCGATCCGCGTGTTTATCGGCGAAGGTCGAAGCGCCCCGCCGACACGGAATTGCGGGCCAGGATGAAGGAACTGGCGTCCGAGC
GGCGACGGTTCGGATATCGCCGTCTGCATATCCTACTGAAGCGCGAGGGATGGCAAGTGAACTGGAAGAAGCTGTACCGGCTCTACCGCGAAGAAGGGTT
AACCGTTCGCAAACGGGGCGGGCGCAAGCGTGCTGTGGGCACCAGGACGCCTATGGCGATCCCGCAGGGGCCGAACCAGCGATGGTCACTCGACTTCATG
TCGGATGCATTGGAGGATGGTCGCCGGTTCCGGGTTTTGAATGTGATCGATGACTTCAGCCGGGAATGCCTGGCCGCTGTGGTGGACACATCCATCGGAG
GCACGCGTGTTGCCCGTGAGCTGGATCGCATCGCAGAACTCCGTGGCTATCCCTGCATGGTGGTCTCAGACAACGGCACAGAACTGACCAGCAATGCGAT
GCTGAAATGGCAGGAAAACCGCAAAGTTGGTTGGCACTACATCGCGCCAGGAAAGCCGATGCAGAACGGTCTTGTCGAAAGCTTCAACGGGCGAATGCGC
GAAGAATGCCTCAATGAACACCTGTTCCCGTCTTTGCGCCATGCCCGCCGCATGATTGCGGCATGGCGCGGCGACTACAATCACTACCGCCCACATTCGA
GCCTCGACGGGCTCACGCCGTGGGAGTATCACCAACGGTCAAAGGAAGACCAAAACCTGAACAGTGCTAACCTAAAGTAGCGGACTCTCAGGGGAGCAGG
TCA
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 aa66332+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKRSRFSEEQIIGILKEHQAGLGAKELCRKHGISDATFYKWRSKYGGMEVSDARRLKTLESENTKLKKMLAEQMMDVATLKEMLGKNF

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
936 bp311 aa2451180+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KREHQTEEDAGRADDGRGDAERDARKKLLRPGSRRNAVNWAMKTKGYNQKRACSLAGIDPRVYRRRSKRPADTELRARMKELASERRRFGYRRLHILLKR
EGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIPQGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELR
GYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQNGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSK
EDQNLNSANLK

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1115 bp371 aa661180+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKRSRFSEEQIIGILKEHQAGLGAKELCRKHGISDATFYKWRSKYGGMEVSDARRLKTLESENTKLKKMLAEQMMDVATLKEMLGKKLLRPGSRRNAVNW
AMKTKGYNQKRACSLAGIDPRVYRRRSKRPADTELRARMKELASERRRFGYRRLHILLKREGWQVNWKKLYRLYREEGLTVRKRGGRKRAVGTRTPMAIP
QGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSIGGTRVARELDRIAELRGYPCMVVSDNGTELTSNAMLKWQENRKVGWHYIAPGKPMQ
NGLVESFNGRMREECLNEHLFPSLRHARRMIAAWRGDYNHYRPHSSLDGLTPWEYHQRSKEDQNLNSANLK

 

Blast result :
Comments
ISRde2 is 85 % (ORFA) aa similar to ISR1 and 70% (ORFB) aa similar to IS511. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Swingley,W.D., Sadekar,S., Mastrian,S.D., Matthies,H.J., Hao,J., Ramos,H., Acharya,C.R., Conrad,A.L., Taylor,H.L., Dejesa,L.C., Shah,M.K., O'huallachain,M.E., Lince,M.T., Blankenship,R.E., Beatty,J.T. and Touchman,J.W. (2007) J. Bacteriol. 189 (3), 683-690