ISfinder Mirror Site

ISBvi5

Family IS5
Group IS427

MGE type ISRelated element(s) :
Isoform Synonym(s)

Accession number	Transposition	Origin	Host
NC_009254	ND	Burkholderia vietnamiensis	Burkholderia vietnamiensis G4 chromosome 3

DNA section

IS Length : 915 bp

Ends

IR Length : 29/31

IRL : GAGGCCAGTTCAAAAAGACTCTCGAGGCGCTGTTAACTTCACCGGCGACC
IRR : GAGGCCAGTTCAAAAAGACTGCTCGATGCGCCTGAAGATGTTCCAACAGA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ATTCCGCTAA		TTAGAAAAGA	0

DNA sequence

GAGGCCAGTTCAAAAAGACTCTCGAGGCGCTGTTAACTTCACCGGCGACCTGTTAACCTCAAGCATCTGAGCAACAGGATCATGAGGGATGCAAGCGCCG
ATCGTTGATGACGAATTGTGGATACTCATCGAGCCATTACTCCCGCCGCCGAAACCGCGGCGAACGAAGAATCCAGGACAGTTTCCGGTTCCGAATCGGG
CGACATTGAACGGCATCCTGTTCGTGCTCAAGACCGGCATTCGATGGAACCATCTGCCAACCCAGCTCGGCTTCGGTTCGGGGGCAACCTGTTGGCGCCG
ACTTCGCGACTGGCACGAAGCCGGTGTGTGGAATCGCCTCCACGAACTATTGCTCGCCAAACTGCAGGCGGCCGGCCAGATCGATTTTTCACGTGCCGCC
GTCGATTCATCATCGGTACGGGCTGTTGGGGCGGGCCAAAAACTGGCCCGAACCCCACTGATCGTGCGCGACCCGGCTCCAAGCACCACATCGTCACCGA
CGCCAACCGCACACCTCTCGCCGCGATCCTGACTGGCGCCAACGTCAACGATGTTACGCAGTTGCTGCCGCTGATCGACGCGATTCCATCGATTCGCGGC
CTGCGCGGCCACCCGATTCAACGGCCTCGCGTGGTCTACGCCAATCGCAGATACGACTCCGAGCGGCATCGGCGAGCCCTGCGCAATCGCGGTATCCAGC
CAGTGATCGCGAAGCGCCGGACCCGACACGGCAGCGGACTCGGCAAGTATCGTTGGGTGGTCGAACGCACTCACTCCTGGCTCCACAGTTTTCGTCGCCT
ACGCACTCGCTTCGAGCGGCGGCCTGACATTCACGAAGCATTCCTGAAACTCGGTTGCTCGCTTGTCTGTTGGAACATCTTCAGGCGCATCGAGCAGTCT
TTTTGAACTGGCCTC

Recoding section

Recoding by frameshift
Frame
Type
Experimentally demonstrated

Stimulators :

Shine-Dalgarno sequence :
Secondary structure :

Recoding motif :

Protein section

ORF number : 3

ORF 1

Length		Begin	End	Strand	Fusion ORF
444 bp	147 aa	89	532	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MQAPIVDDELWILIEPLLPPPKPRRTKNPGQFPVPNRATLNGILFVLKTGIRWNHLPTQLGFGSGATCWRRLRDWHEAGVWNRLHELLLAKLQAAGQIDF
SRAAVDSSSVRAVGAGQKLARTPLIVRDPAPSTTSSPTPTAHLSPRS

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
546 bp	181 aa	361	906	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

TAGGRPDRFFTCRRRFIIGTGCWGGPKTGPNPTDRARPGSKHHIVTDANRTPLAAILTGANVNDVTQLLPLIDAIPSIRGLRGHPIQRPRVVYANRRYDS
ERHRRALRNRGIQPVIAKRRTRHGSGLGKYRWVVERTHSWLHSFRRLRTRFERRPDIHEAFLKLGCSLVCWNIFRRIEQSF

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
818 bp	272 aa	89	906	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MQAPIVDDELWILIEPLLPPPKPRRTKNPGQFPVPNRATLNGILFVLKTGIRWNHLPTQLGFGSGATCWRRLRDWHEAGVWNRLHELLLAKLQAAGQIDF
SRAAVDSSSVRAVGAGQKTGPNPTDRARPGSKHHIVTDANRTPLAAILTGANVNDVTQLLPLIDAIPSIRGLRGHPIQRPRVVYANRRYDSERHRRALRN
RGIQPVIAKRRTRHGSGLGKYRWVVERTHSWLHSFRRLRTRFERRPDIHEAFLKLGCSLVCWNIFRRIEQSF

Blast result :

Comments

ISBvi5 is 89% aa similar to ISBcen20.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.

References

1] ISfinder annotation (2010)

2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Chain,P., Malfatti,S., Shin,M., Vergez,L., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Tiedje,J. and Richardson,P. (2007) Direct submission GenBank