ISfinder Mirror Site

ISVsa8

Family IS630
Group

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

Accession number	Transposition	Origin	Host
NC_011312	ND	Aliivibrio salmonicida	Aliivibrio salmonicida LFI1238 chromosome 1

DNA section

IS Length : 1122 bp

Ends

IR Length : 21/29

IRL : TAAGTAGTTAATGATAAGTTTTCGAGAATGAAGATTTCGCCTTTACCATA
IRR : TAAGTAGTCACGCAAAAGTTATTGTGAATTTTTCGCCGTAATAATTTAAT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ACTTGGGTGC		ACAAGACATT	0

DNA sequence

TAAGTAGTTAATGATAAGTTTTCGAGAATGAAGATTTCGCCTTTACCATATATCCATATATCCATATGGTATTAAAATGAGTATTTTAACGTCAGTGTCT
ATATCATAATGAAAGCAGTTAATCCTTTAACAGACAATGAAAAAATAACCCTAAAAGAAGCGATCGCTAATCATCCAAAAAATAGAGTAAGAATACGAGC
ACATGCGATTATTCTCAGTGATAAAGGCTACTCTATTTTAGCGTTAACTGATATTTTAGACGCTAAATTTGAGACCATATCGTCATGGATAGACCATTGG
GAAGCCTGTGGAATGCTCGGATTGTATGACGCTGTTCGTATAGGTAGAAAACCTATTTACACAGAAGCAGAAGTATATCGTTTGAAGTCATTGGTTGATG
AAGAGCCACATCAACTTAAACGAGCACAAGCAATACTTGAAGAAGAAACAGGTAAAAAATCCAGCTTAGACACTATTAAACGAAATATAAAAAAAGTGAT
TACAGTTACAAAAGAGCCCGACACTCATTAAAGTTAAAGCGTGACGATATGAAATTCAATAATTTCAGTAATATATTGAATTCATTGATTGAAATGGAAC
GTACGAATAAATGTGAACTCTTTTATTTTGATGAGTCAGGCTTTAGTCAGAAATCTAATCTTCCTTATTGTTGGGGACCTATCGGTGTTCAATCGCTAAG
GCCTGCTCATTCACACAGCAAACGGCTCAATGTTCTTGGCTTCTTAAGTAGACAAGGTAAATTGAGTTTTCAAACAACGGAAGGAAGAGTAACTACCGAT
ACAGTAATTGATGCATTTGAGCACTTTATCAACGCACGAAAAAACGATAAGCCATGCTTTATTATCTTAGATAATGCCTCTTTTCATAGGTCAGCAAAAT
TTAAACAAAAATTGCATGAGTGGTTGATGAATGATGTATTAGTTTGTTATCTACCACCGTACTCTCCAGAGCTCAATATCATTGAGATATTGTGGAAGAA
AGTAAAATATGAATGGTTACCATGTGAAGCGTTCAAAACGTTTGAAGACCTCAGTATTAACATCAAAAACATATTAAATTATTACGGCGAAAAATTCACA
ATAACTTTTGCGTGACTACTTA

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
423 bp	140 aa	109	531	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKAVNPLTDNEKITLKEAIANHPKNRVRIRAHAIILSDKGYSILALTDILDAKFETISSWIDHWEACGMLGLYDAVRIGRKPIYTEAEVYRLKSLVDEEP
HQLKRAQAILEEETGKKSSLDTIKRNIKKVITVTKEPDTH

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
636 bp	211 aa	480	1115	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

TKYKKSDYSYKRARHSLKLKRDDMKFNNFSNILNSLIEMERTNKCELFYFDESGFSQKSNLPYCWGPIGVQSLRPAHSHSKRLNVLGFLSRQGKLSFQTT
EGRVTTDTVIDAFEHFINARKNDKPCFIILDNASFHRSAKFKQKLHEWLMNDVLVCYLPPYSPELNIIEILWKKVKYEWLPCEAFKTFEDLSINIKNILN
YYGEKFTITFA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1007 bp	335 aa	109	1115	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKAVNPLTDNEKITLKEAIANHPKNRVRIRAHAIILSDKGYSILALTDILDAKFETISSWIDHWEACGMLGLYDAVRIGRKPIYTEAEVYRLKSLVDEEP
HQLKRAQAILEEETGKKSSLDTIKRNIKKSDYSYKRARHSLKLKRDDMKFNNFSNILNSLIEMERTNKCELFYFDESGFSQKSNLPYCWGPIGVQSLRPA
HSHSKRLNVLGFLSRQGKLSFQTTEGRVTTDTVIDAFEHFINARKNDKPCFIILDNASFHRSAKFKQKLHEWLMNDVLVCYLPPYSPELNIIEILWKKVK
YEWLPCEAFKTFEDLSINIKNILNYYGEKFTITFA

Blast result :

Comments

ISVsa8 is 52% aa similar to ISAcma15. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2009)
2] Hjerde,E., Lorentzen,M.S., Holden,M.T.G., Seeger,K., Paulsen,S., Bason,N., Churcher,C., Harris,D., Norbertczak,H., Quail,M.A., Sanders,S., Thurston,S., Parkhill,J., Willassen,N.P. and Thomson,N.R. (2008) Direct submission GenBank.