ISfinder Mirror Site

ISBuph1

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
NC_010676	ND	Burkholderia phytofirmans	Burkholderia phytofirmans PsJN chromosome 2

DNA section

IS Length : 912 bp

Ends

IR Length : 17/18

IRL : GAAGCTGTTGCGAAATTAAGTTTTGGGTCTGTTAACTTTTCCGGCTTGGT
IRR : GACGCTGTTGCGAAATTAGTTAAACAGCGGCTTTAGGCGCGTCCAGTAAA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ACCATGCGCT	TTA	GTCGCCACTG	3

DNA sequence

GAAGCTGTTGCGAAATTAAGTTTTGGGTCTGTTAACTTTTCCGGCTTGGTGTTAACTTTCTGTCTTGTTTTGCCTGACAGGAAGCGATGCCTAAAGAACT
GATAGACGACGAATTGTGGTCATTCATCGAACCACTGCTGCCTGCGCGAGCGCCACGCAATCGCCAGTTTGCGGGCCGCAAACCGACACCCGACCGAGCG
GTGCTGACCGCTATCGTGTTCGTGTTGCGCTCAGGTATTGCGTGGAACCTTCTGCCGCAAGAAATGGGATGTGGTTCAGGCACAGCTTGCTGGCGACGGC
TCGTCGCGTGGCAAGAGGCAGGTGTCTGGCAACACATTCACGAAACGTTGCTCGCCGAACTGCGTCGCCGTGGCGAAATCAATTTCTCGCGTGCGCTCGT
CGACAGCTCATCGATTCATGCCGTGCTGGCGGGAAAAAATCGGCCCGAATCCCACGGACCGGCGCAAGCTCGGCAGCAAACACCACCTCATCGTCGACGC
GCAAGGCATCCCGCTCGCGGTCATCCTGAGCGCGGCGAACCGGCACGACATTACCCAGCTTGATGCGCTCGTCGATGCTATTCCACACATCCGGGGCAAG
CGGGGCCGTCCCCCGCACAAGCCGCAAATCGTTCAGGGCGACCGGGGCTACAGTTCCGAATCCCATCGGCGGCGCTTGCGCGAGCGAGGCGTCACGCCAG
CGCTCGCAAAAATCGGCTCGCCGCATGGCAGTGGCCTCGGCATAACGCGTTGGCCAGTCGAGCGTTCGATTGCGTGGCTTCACTCGTTTCGACGGCTCAA
GATTCGTTACGAACGCTATGCGCATGTTCACGAAGTATTCCGGTCTTTGGCTTGCGCCTAAATTTACTGGACGCGCCTAAAGCCGCTGTTTAACTAATTT
CGCAACAGCGTC

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
477 bp	158 aa	87	563	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPKELIDDELWSFIEPLLPARAPRNRQFAGRKPTPDRAVLTAIVFVLRSGIAWNLLPQEMGCGSGTACWRRLVAWQEAGVWQHIHETLLAELRRRGEINF
SRALVDSSSIHAVLAGKNRPESHGPAQARQQTPPHRRRARHPARGHPERGEPARHYPA

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
444 bp	147 aa	418	861	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

MPCWREKIGPNPTDRRKLGSKHHLIVDAQGIPLAVILSAANRHDITQLDALVDAIPHIRGKRGRPPHKPQIVQGDRGYSSESHRRRLRERGVTPALAKIG
SPHGSGLGITRWPVERSIAWLHSFRRLKIRYERYAHVHEVFRSLACA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
775 bp	258 aa	87	861	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPKELIDDELWSFIEPLLPARAPRNRQFAGRKPTPDRAVLTAIVFVLRSGIAWNLLPQEMGCGSGTACWRRLVAWQEAGVWQHIHETLLAELRRRGEINF
SRALVDSSSIHAVLAGKKIGPNPTDRRKLGSKHHLIVDAQGIPLAVILSAANRHDITQLDALVDAIPHIRGKRGRPPHKPQIVQGDRGYSSESHRRRLRE
RGVTPALAKIGSPHGSGLGITRWPVERSIAWLHSFRRLKIRYERYAHVHEVFRSLACA

Blast result :

Comments

ISBuph1 is 70% aa similar to ISBugl2. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2010)
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Chain,P., Malfatti,S., Shin,M., Vergez,L., Lang,D., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Nowak,J., Sessitsch,A., Lazarovits,G., Compant,S., Barka,E. and Tiedje,J. (2008) Direct submission GenBank.