ISfinder Mirror Site

ISSod10

Family IS630
Group

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

Accession number	Transposition	Origin	Host
NC_004347	ND	Shewanella oneidensis	Shewanella oneidensis MR-1

DNA section

IS Length : 1095 bp

Ends

IR Length : 23/35

IRL : CCAATCTCCTTAATTATGTGATCTAATTAGCCAACACGTTCTCAGCTTCC
IRR : CCAATTACATTAATTAACTGTTCATCTTTGCCCACTGCCTAGAGCATAAT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ACTATTTTTA	TA	TTATTTCATT	2

DNA sequence

CCAATCTCCTTAATTATGTGATCTAATTAGCCAACACGTTCTCAGCTTCCAGCTCATGAGCCATCCAGACATTGCTGCATTAGTTAAATCCGAGAAAAGC
GCACGTAAACGGATCCGCTATCTCGCTCTGCTTCACTTCACAGAAGGTCATTCCCGTACTGCTATCGCCAGTATGTTGAAGGTCAGCAGAACCAGTGTGA
ATAAGTGGGTCTCCACTTATCTTTCCTTGGGACTGTCCGGCCTAAATGACAAGCCAAATCCGGGACGTCCCGCTAAATTGTCCTCCTCGCAACTAGCAAC
CCTAGCAGAATTCGTCCAGCTCAAAAGTCTATCTGAGCAAGGTGGCAGACTAATGGCCAAGGATGTCGGCGACTTTATCCAGTCTGAATTTGGCGTGACT
TTCAAGCAAACTAATCTCTACCGTTTACTACATCAATTAGGCTTTTCGTGGATCACTACGAGAGCACGTCATCCGAAGCAATCTGAAGCTGTGCAAGAGT
CTTTTAAAAAACTTCCCAATGGCAATGATCCTTAACACCCCAGGACACGTTGCACTCGATCGCATTGATGTTTGGTTTCAAGATGAAGCCAGATTTGGTC
AACAAAACACCACCACTCGTATCTGGGCTGAGAAAGGGACTCGGCCACGAGCAGTAAAACAGCAACAGTTTGAATCAGCGTATTTATTTGGGGCTCTGTG
TCCGGCAACAGGCGCCACGGAAGCCATTCTCGCCCCGTTTGCCAACAGCGATTATATGCATGAACACTTAAAATTGATCTCGGCCGCAACAGAATTTGGA
CGACATGCACTGGTCATCATGGACGGTGCGGGCTGGCATCAACGAGATTTAGCCGATGACTTTGATAACCTAAGTATCGTCAAACTCCCCCCATATTCAC
CGGAGTTGAATCCGATGGAGCAGGTCTGGCAATGGCTGCGTCAACATGTGCTGGCAAATCGCAGCTTTAAGGGCTACGACGATATTGTCGAGCAATGCTC
CATCGCATGGAATACATTTATAAAAGAACCGCTGAGGGTAATGCAATTATGCTCTAGGCAGTGGGCAAAGATGAACAGTTAATTAATGTAATTGG

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
480 bp	159 aa	56	535	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSHPDIAALVKSEKSARKRIRYLALLHFTEGHSRTAIASMLKVSRTSVNKWVSTYLSLGLSGLNDKPNPGRPAKLSSSQLATLAEFVQLKSLSEQGGRLM
AKDVGDFIQSEFGVTFKQTNLYRLLHQLGFSWITTRARHPKQSEAVQESFKKLPNGNDP

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
642 bp	213 aa	441	1082	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

AFRGSLREHVIRSNLKLCKSLLKNFPMAMILNTPGHVALDRIDVWFQDEARFGQQNTTTRIWAEKGTRPRAVKQQQFESAYLFGALCPATGATEAILAPF
ANSDYMHEHLKLISAATEFGRHALVIMDGAGWHQRDLADDFDNLSIVKIPPYSPELNPMEQVWQWLRQHVLANRSFKGYDDIVEQCSITWNTFIKEPLRV
MQLCSRQWAKMNS

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1027 bp	342 aa	56	1082	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSHPDIAALVKSEKSARKRIRYLALLHFTEGHSRTAIASMLKVSRTSVNKWVSTYLSLGLSGLNDKPNPGRPAKLSSSQLATLAEFVQLKSLSEQGGRLM
AKDVGDFIQSEFGVTFKQTNLYRLLHQLGFSWITTRARHPKQSEAVQESFKKNFPMAMILNTPGHVALDRIDVWFQDEARFGQQNTTTRIWAEKGTRPRA
VKQQQFESAYLFGALCPATGATEAILAPFANSDYMHEHLKLISAATEFGRHALVIMDGAGWHQRDLADDFDNLSIVKIPPYSPELNPMEQVWQWLRQHVL
ANRSFKGYDDIVEQCSITWNTFIKEPLRVMQLCSRQWAKMNS

Blast result :

Comments

ISSod10 is 91% aa similar to ISSpu8. The third ORf is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
There are 4 copies of ISSod10 in the chromosome and 0 copies in the plasmid of this strain.
File updated : September 20 2012.

References

1] DeBoy R. (2005) Direct submission.
2] Heidelberg,J., Paulsen,I., Nelson,K., Gaidos,E., Nelson,W., Read,T., Eisen,J., Seshadri,R., Ward,N., Methe,B., Clayton,R., Meyer,T., Tsapin,A., Scott,J., Beanan,M., Brinkac,L., Daugherty,S.,
DeBoy,R., Dodson,R., Durkin,A., Haft,D., Kolonay,J., Madupu,R., Peterson,J., Umayam,L., White,O., Wolf,A., Vamathevan,J., Weidman,J., Impraim,M., Lee,K., Berry,K., Lee,C., Mueller,J.,Khouri,H., Gill,J., Utterback,T., McDonald,L., Feldblyum,T., Smith,H., Venter,J., Nealson,K. and Fraser,C.
(2002) Nat. Biotechnol. 20 (11), 1118-1123