ISfinder Mirror Site

ISSpo6

Family IS630
Group

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

Accession number	Transposition	Origin	Host
NC_003911	ND	Silicibacter pomeroyi	Silicibacter pomeroyi DSS-3

DNA section

IS Length : 1052 bp

Ends

IR Length : 11

IRL : GAGCATCGGACTGACTTTTTGAATCGATAGGATTCCCATGGGGAGTGATT
IRR : GAGCATCGGACATTTATTCTGCAACATATCCGGCAGCCTTGAAGTAGGCT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ATCAACACGC	TA	GGGGTCGATGTGAC	2

DNA sequence

GAGCATCGGACTGACTTTTTGAATCGATAGGATTCCCATGGGGAGTGATTTGTGATTCACCATATCTGGAGGTGGATCATGGCGAAGTCCCTATCACTGG
ATATCCGCGAACGGGTTGTCGCCCTTGTTGGAGAGGGCCTGTCCTGTCGGGAAGCAGCTCGCCGCTTGCGGATATCTGCGGCAAGCGCGGTTCGGATTGT
GCAGAGGCACAAGGTGCGAGGGTCGGTTGCTCCGACACCCAGAGGCCGCCCGCGAGGCGGTGGCAAACTCGATGCGGTTTCGCGCTTCCTTCGGCGCGAG
ATCGAGGCCCGGCCTGACATGACGATGCCGGAGTTGGCCGATAGGCTCCGTGACATCCATGATGTTCGCGCCGATCCGGCGGAGTTGTCGCGGTATCTGC
GGCACCGGCTTGGGCTGACATATAAAAAAATCCCTCATCGCGACGGAAAGACGGGCCAAGCGGGTGCGCGCCGCGCGATACGACTGGCAGCACAGGCGGC
TGCCGAGGATGCGTGTTGAACCGCACCGGCTGGTTTTCATCGACGAGACCGCGGTCACGACCAAGATGACCCGTTTGCGCGGACGCTGCCCGCGCGGAGC
GCGACTGGAAGCTGATGCGCCATTTGGACACTGGCGCACGCAGACTTTCATCGCCGGACTTCGGGTCGATGAATTGACCGCGCCCTGGATGCTCGACGGG
CCGATGAACCGCGCCGCGTTCGAGGCCTATATCGAGACCCAACTCGCGCCCACGCTCGCACCCGGGGACGTGGTGATCGCCGACAACCTCGCAGCGCACA
AATCGAAGCGGGTTCAGGACCTGCTCCACGACCAAGACAACTGGATGCTCTTCCTGCCGGCCTACAGCCCTGACCTTAACCCCATCGAAATGGCCTATTC
CAAACTCAAGGCCCACCTCCGAAGGATCGCCGCCCGGACCTTCGATGCCTTGACCGAAGCCGTCGGCTCAATCTGCGATCTCTTCTCGTGGCAAGAATGC
GAAGCCTACTTCAAGGCTGCCGGATATGTTGCAGAATAAATGTCCGATGCTC

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
441 bp	146 aa	79	519	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MAKSLSLDIRERVVALVGEGLSCREAARRLRISAASAVRIVQRHKVRGSVAPTPRGRPRGGGKLDAVSRFLRREIEARPDMTMPELADRLRDIHDVRADP
AELSRYLRHRLGLTYKKIPHRDGKTGQAGARRAIRLAAQAAAEDAC

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
621 bp	206 aa	419	1039	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

HIKKSLIATERRAKRVRAARYDWQHRRLPRMRVEPHRLVFIDETAVTTKMTRLRGRCPRGARLEADAPFGHWRTQTFIAGLRVDELTAPWMLDGPMNRAA
FEAYIETQLAPTLAPGDVVIADNLAAHKSKRVQDLLHDQDNWMLFLPAYSPDLNPIEMAYSKLKAHLRRIAARTFDALTEAVGSICDLFSWQECEAYFKA
AGYVAE

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
961 bp	319 aa	79	1039	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAKSLSLDIRERVVALVGEGLSCREAARRLRISAASAVRIVQRHKVRGSVAPTPRGRPRGGGKLDAVSRFLRREIEARPDMTMPELADRLRDIHDVRADP
AELSRYLRHRLGLTYKKSLIATERRAKRVRAARYDWQHRRLPRMRVEPHRLVFIDETAVTTKMTRLRGRCPRGARLEADAPFGHWRTQTFIAGLRVDELT
APWMLDGPMNRAAFEAYIETQLAPTLAPGDVVIADNLAAHKSKRVQDLLHDQDNWMLFLPAYSPDLNPIEMAYSKLKAHLRRIAARTFDALTEAVGSICD
LFSWQECEAYFKAAGYVAE

Blast result :

Comments

There is one copy of ISSpo6 in Silicibacter pomeroyi DSS-3.
ISSpo6 is 55%(ORFAB) aa similar to ISRm10. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Moran,M.A., Buchan,A., Gonzalez,J.M., Heidelberg,J.F., Whitman,W.B., Kiene,R.P., Henriksen,J.R., King,G.M., Belas,R., Fuqua,C., Brinkac,L., Lewis,M., Johri,S., Weaver,B., Pai,G., Eisen,J.A., Rahe,E., Sheldon,W.M., Ye,W., Miller,T.R., Carlton,J., Rasko,D.A., Paulsen,I.T., Ren,Q., Daugherty,S.C., Deboy,R.T., Dodson,R.J., Durkin,A.S., Madupu,R., Nelson,W.C., Sullivan,S.A., Rosovitz,M.J., Haft,D.H., Selengut,J. and Ward,N. (2004) Nature 432 (7019), 910-913