ISfinder Mirror Site

ISSpu4

Family IS3
Group IS3

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

Accession number	Transposition	Origin	Host
NC_009438	ND	Shewanella putrefaciens	Shewanella putrefaciens CN-32

DNA section

IS Length : 1266 bp

Ends

IR Length : 21/26

IRL : TGTAGTGGCACACTGAATTTGGCCACCTAATAAGAAATGTTATGATCTCA
IRR : TGTAGTGGTCAATTAAATTTGGCCACAACTTTAGAATCTTCCCAAAATCG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
CAGAGACTAT	GTG	GCAACCAGCTATT	3
AGATAGTAAT		GCAATACCAAAGA	0
AAACTTTGTT		GATTGAGCCCA	0

DNA sequence

TGTAGTGGCACACTGAATTTGGCCACCTAATAAGAAATGTTATGATCTCACTCATAACCCATTTAGGTGACAATATGAATAAAAGTAAACGTGCACGATA
TAGCGCTGCCATTAAGCTCGAAACCGCTCAATTAGTCGTTGATCAAGGCTATACACAAGAAGCGGCCGCAAAAGCCATGAACGTGGGTAAATCGACGGTC
AGTAAGTGGGTAACACAGCTTCAGGTTGAGCGCCAAGGGCATGCTCCTAAAGCCTCACCAATGACACCAGAACAAATTGAAATCAGGGCACTTAAACGCG
AAATTGAACGGATTAATCTCGAGAAAGAAATCTTAAAAAAGGCTACAGCTCTATTGATGTCGGACTCGCTGAACAATTCTCGATAATCGAGAAACTCAAT
CAGAGCAACAAATACCCTATTTCAGTGTTATGCCACGTATTCAACGTGAACCGGAGTAGCTACCGTTATTGGGCAAGCAGTGAGCTTGTGGCGACACCAG
AACAGCGACTTTTAGAATGTGAAATCAAAGCGATACATGCTGAAAGTAAGGAGTCTGCGGGTGCGCGAAGTATAGCCACCATCGCTTCTGAACGTGGCTT
TACGTTAAGTCGTTATCGGGCGACTCGGTTAATGAAAAAGCTTGGATTAGTGAGTTGCCAACAACCCAAACACCGCTATAAAAAAGCTGAAAATGAGCAT
GTGACCATCCCTAATTTACTCAAACGACAATTTGCAGTTGTCGAACCTAACACCGTTTGGTGTGGCGATGTGACGTATATTTGGGCGGGTAATCGTTGGT
GCTATTTAGCGGTTGTGCTGGATTTATTTTCGAGAAAAGCCATTGGTTGGGCGATGTCATTTTCACCGGATACCGAGTTAACGGTGAAGGCGTTAGAAAT
GGCATTTGAATCACGGGGGAAGCCTAAAAACCTGATATTTCATTCAGATCAAGGCTGCCATTATACCAGCCTGAAATACCGTCAACGGTTGTGGAAATAT
CAAATCACTCAAAGCATGAGCCGTCGCGGTAACTGCTGGGATAATGCGCCAATGGAGCGATTTTTCAGGAGTTTAAAAACGGAATGGCTCCCGACACAAG
GCTACAAGAGTTTTAGCGAAGCTAAACAAGATGTGACTGATTACATCATTGGTTATTACTGTGAAGTCAGGCCACATCATTACAATGCAGGATTGAGCCC
AAATGAATCAGAACGACGATTTTGGGAAGATTCTAAAGTTGTGGCCAAATTTAATTGACCACTACA

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
312 bp	103 aa	75	386	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MNKSKRARYSAAIKLETAQLVVDQGYTQEAAAKAMNVGKSTVSKWVTQLQVERQGHAPKASPMTPEQIEIRALKREIERINLEKEILKKATALLMSDSLN
NSR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
942 bp	313 aa	317	1258	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

SRERNLKKGYSSIDVGLAEQFSIIEKLNQSNKYPISVLCHVFNVNRSSYRYWASSELVATPEQRLLECEIKAIHAESKESAGARSIATIASERGFTLSRY
RATRLMKKLGLVSCQQPKHRYKKAENEHVTIPNLLKRQFAVVEPNTVWCGDVTYIWAGNRWCYLAVVLDLFSRKAIGWAMSFSPDTELTVKALEMAFESR
GKPKNLIFHSDQGCHYTSLKYRQRLWKYQITQSMSRRGNCWDNAPMERFFRSLKTEWLPTQGYKSFSEAKQDVTDYIIGYYCEVRPHHYNAGLSPNESER
RFWEDSKVVAKFN

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1184 bp	394 aa	75	1258	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNKSKRARYSAAIKLETAQLVVDQGYTQEAAAKAMNVGKSTVSKWVTQLQVERQGHAPKASPMTPEQIEIRALKREIERINLEKEILKKGYSSIDVGLAE
QFSIIEKLNQSNKYPISVLCHVFNVNRSSYRYWASSELVATPEQRLLECEIKAIHAESKESAGARSIATIASERGFTLSRYRATRLMKKLGLVSCQQPKH
RYKKAENEHVTIPNLLKRQFAVVEPNTVWCGDVTYIWAGNRWCYLAVVLDLFSRKAIGWAMSFSPDTELTVKALEMAFESRGKPKNLIFHSDQGCHYTSL
KYRQRLWKYQITQSMSRRGNCWDNAPMERFFRSLKTEWLPTQGYKSFSEAKQDVTDYIIGYYCEVRPHHYNAGLSPNESERRFWEDSKVVAKFN

Blast result :

Comments

ISSpu4 is 78% aa similar to IS911 (ORF3) . The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
There are 3 copies on Shewanella putrefaciens CN-32 genome at coordinate : CPL (293217-294482) ; CPL (824537-825802) ; CPL (4456441-4457706).

References

1] Margie Romine (2008) Direct submission.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Chain,P., Malfatti,S., Shin,M., Vergez,L., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Romine,M.F., Fredrickson,J., Tiedje,J. and Richardson,P. (2007) Direct submission GenBank.