ISfinder Mirror Site

ISVha3

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
NC_009784	ND	Vibrio harveyi	Vibrio harveyi ATCC BAA-1116 chromosome II

DNA section

IS Length : 857 bp

Ends

IR Length : 17/21

IRL : GAACCTATCTCAATAGGTGTTGTCTGAGTAAATCAACACCTATTGAAAAT
IRR : GAACCTATCCCAAAAGGGATTTATTCCAAACAATGAGGCCGCAAGCAAAA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
CTAATTGGAT	TAA	GTCTTATATC	3
ATGTGATTACTTA		TAAGGCTGAGGGC	0

DNA sequence

GAACCTATCTCAATAGGTGTTGTCTGAGTAAATCAACACCTATTGAAAATACTGTAAATGAATTCAACACAATACCTAATCTCTGATGCCCTTTGGGCAA
AAATTGAGCCGCTTTTACCAATCCACAAGACGAACCATCCTCTAGGAACACATCGAAAGAGAGTCGATAATCGTGATGCTATGAACGGCATCCTTTTTGT
TCTCAGAACTGGTTGTCAGTGGAATGCGCTTAACGCGACAGGTATTTGTACATCTAGCTCTGCACATCGTCGTTTTCAAGAGTGGCGAGATGCAGGAGTC
TTTGAGCGATTTTGGCAAAATGGTCTGATTTACGAAGGGGTTGATTGGAGTTCCATATCAATGGACGGGTGCCAAACTAAAGCACCTTTAGCTGGTCAAA
AAAACAGGTAAGAATCCAACAGACCGAGCGAAACAAGGCGTAAAACGCATTTTGTTGACGGATGCGAATGGATTGCCACTGGCTGTTGTTAGCGATGGCG
CGAACGTCCACGACATTAAGCTGGTACTTCAAACATTAGATGCACTAGAGTGTTATCGACCACCGCTGAAAGTGCCTTTGTACCTAGACAAAGGTTATAC
AGGTCAGTGGTTACATGATGAACTGGTTGATTTGAACTACATCCCTCACGTTCAATCACGAGCAGAAGAGGCAGCGAACTTAAAACAATCGGATGATTTT
AAGGCTCATCGTTGGGTTGTGGAGCGAACCCATAGCTGGTTAAACCGTTATCGTAGATTGCTTGTTCGTTGGGAAAAGAAAATAGAAAACTACGAGGCCA
TGTTGCATTTTGCTTGCGGCCTCATTGTTTGGAATAAATCCCTTTTGGGATAGGTTC

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
354 bp	117 aa	58	411	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MNSTQYLISDALWAKIEPLLPIHKTNHPLGTHRKRVDNRDAMNGILFVLRTGCQWNALNATGICTSSSAHRRFQEWRDAGVFERFWQNGLIYEGVDWSSI
SMDGCQTKAPLAGQKNR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
462 bp	155 aa	392	853	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

LVKKTGKNPTDRAKQGVKRILLTMTDANGLPLAVVSDGANVHDIKLVLQTLDALECYRPPLKVPLYLDKGYTGQWLHDELVDLNYIPHVQSRAEEAANLK
QSDDFKAHRWVVERTHSWLNRYRRLLVRWEKKIENYEAMLHFACGLIVWNKSLLG

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
796 bp	266 aa	58	853	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNSTQYLISDALWAKIEPLLPIHKTNHPLGTHRKRVDNRDAMNGILFVLRTGCQWNALNATGICTSSSAHRRFQEWRDAGVFERFWQNGLIYEGVDWSSI
SMDGCQTKAPLAGQKTGKNPTDRAKQGVKRILLTMTDANGLPLAVVSDGANVHDIKLVLQTLDALECYRPPLKVPLYLDKGYTGQWLHDELVDLNYIPHV
QSRAEEAANLKQSDDFKAHRWVVERTHSWLNRYRRLLVRWEKKIENYEAMLHFACGLIVWNKSLLG

Blast result :

Comments

ISVha3 is 79% aa similar to ISPrst3. The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2010)
2] Bassler,B., Clifton,S.W., Fulton,L., Delehaunty,K., Fronick,C., Harrison,M., Markivic,C., Fulton,R., Tin-Wollam,A.-M., Shah,N., Pepin,K., Nash,W., Thiruvilangam,P., Bhonagiri,V., Waters,C., Tu,K.C., Irgon,J. and Wilson,R.K. (2007) Direct submission GenBank.