ISfinder Mirror Site

ISSoc13

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
NC_007776	ND	Synechococcus sp.	Synechococcus sp. JA-2-3B

DNA section

IS Length : 811 bp

Ends

IR Length : 18/22

IRL : GGTCGTGTTGATCTTATGTTAGGATAGAGGGAATAATTTATAGAGGAAAG
IRR : GGTTGTGTTGATCTTTCATTTGAGCCAAAAGAGAGCACTGACGAGATAGA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
CTGGGGGTGC	TA	GGCGGCAGAG	2
CTCACCCCCG	TA	GTTTGGAATG	2
AGGGGATCCC	TA	GAGCTTGCGG	2
CGAGCCAGCC	TA	GCTAAAAAAG	2
CTTCCAGTTC	TA	GAAGACTTGA	2
TTGGCGGGAC	TA	GCATTGGATC	2
CAGGCCGTCT	TA	GTGATCCCCT	2
CACAGAGGAC	TA	GGAAGGAGGG	2
GACTTGCTCT	TA	GGTACCTTGC	2
CTAGCTTTCT	TA	GGACTCCGTC	2
CGCCACTCTC	TA	GGCTTGCACA	2
CTCTGAGGGC	TA	GGGCCCCGAT	2
TGTCTCAATC	TA	GTTTCAAATG	2
TTGTGAGAGT	TA	ATCTTATTTG	2
CACAAAATCC	TA	AGGGATCCCT	2
AGGAGGGAGC	TA	AAAAGATAAT	2
GGTGCAGTTG	GG	TGCAGTTGGG	2

DNA sequence

GGTCGTGTTGATCTTATGTTAGGATAGAGGGAATAATTTATAGAGGAAAGAGGATGAAGTTGGTTTTTTTAGATGAAAACAAATGGCAGAAGATATTGGC
TTTTTTACAGACAGAAGAGAGAGTTAACATTGGGAAAGAAGCAAACTGCAAGCAGTTTATTGAAGCAGTTCTTTGGATAGCCCGTTCCGGTGCTCCTTGG
CGCTACCTCCCAGAAGGATATGGCAAATGGTACACCATCTATCAAAGATTCCACCGGTGGAGTCGTTTTGGAGTGTGGGAACGGATGTTCAAGTATTTTA
TTGACGACCCTGATTTAGAGCATCTCATTATTGATTCAACCATGGTTCGAGCGCACTCCTGTGCTGCCGGAAAAAAGGGGAGCAAGCTTTGGGGAGAAGC
CGAGGCGGATACAGCACCAAGATTCATGTGAGTGTAGATGGGTTGGGAAATCCGCTGGAATTGAGAATAACTGGCGGAGAAAAGAGCGATATTACTCAAG
GGGAAGAATTGATAGAGGGCTGGCAGAGAAAGGATACCAAAGTAATTGGGGATAAAGGATATGATGCGGATAAGTTGATTGAGAAGATAGGGGAAGCTCA
AGCGGTTATTCCGCCTAAAAGGAATAGAAAGACGCAGCGGCATTATGACAAGCATCTGTATAAAGAGAGGCATTTAATCGAATGCTTTTTTCATAAGTTA
AAGCAGTACCGGCATCTATTTTCTCGTTTTGACAAATTGGCCAGGAACTTCTTGAGTTTTCTCTATCTCGTCAGTGCTCTCTTTTGGCTCAAATGAAAGA
TCAACACAACC

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
378 bp	125 aa	54	431	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKLVFLDENKWQKILAFLQTEERVNIGKEANCKQFIEAVLWIARSGAPWRYLPEGYGKWYTIYQRFHRWSRFGVWERMFKYFIDDPDLEHLIIDSTMVRA
HSCAAGKKGSKLWGEAEADTAPRFM

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
462 bp	153 aa	335	796	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

FNHGSSALLCCRKKGEQALGRSRGGYSTKIHVSVDGLGNPLELRITGGEKSDITQGEELIEGWQRKDTKVIGDKGYDADKLIEKIGEAQAVIPPKRNRKT
QRHYDKHLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
743 bp	247 aa	54	796	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKLVFLDENKWQKILAFLQTEERVNIGKEANCKQFIEAVLWIARSGAPWRYLPEGYGKWYTIYQRFHRWSRFGVWERMFKYFIDDPDLEHLIIDSTMVRA
HSCAAGKKGEQALGRSRGGYSTKIHVSVDGLGNPLELRITGGEKSDITQGEELIEGWQRKDTKVIGDKGYDADKLIEKIGEAQAVIPPKRNRKTQRHYDK
HLYKERHLIECFFHKLKQYRHLFSRFDKLARNFLSFLYLVSALFWLK

Blast result :

Comments

ISSoc13 is 65% aa similar to ISCc1.The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Allewalt,J.P., Bateson,M.M., Revsbech,N.P., Slack,K. and Ward,D.M.(2006)Appl. Environ. Microbiol 72 (1), 544-550.
2] Bateson,M.M. and Ward,D.M. (2006) Direct Submission GenBank.
3] Heidelberg,J.(2005) Direct Submission GenBank.