ISfinder Mirror Site

ISSfl11

Family IS3
Group IS3

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

Accession number	Transposition	Origin	Host
NC_004851	ND	Shigella flexneri	Shigella flexneri 2a 301

DNA section

IS Length : 1139 bp

Ends

IR Length : 13/22

IRL : TGAGGTAGCCTGAGTTTAACGGACACTCCTTCCTGAAATAGAATGGCATC
IRR : TGAGGCCGACCTCAATCAGTTTTCCCGTATGCTGACGAAATATCCCGGCT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TGTCGTAACA	GTT	TTGAGGCCTT	3

DNA sequence

TGAGGTAGCCTGAGTTTAACGGACACTCCTTCCTGAAATAGAATGGCATCAGAAGGAGCCAATAATGAGCAGAAAAACCCAACGTTACTCTACGGAGTTT
AAAGCCGAAGCCGTCAAAACGGTTCCTGAAAATCAGCTTTCGATCAGTGAAGGCGCTTCCCGATTATCTGTTCCTGAAGGCACTTTAGGACAATGGGTTA
CCGCCGCAAGAAAAGGGCTCAATACACCAGGCTCCCGCACAGTGGCTGAGCTGGAATCTGAAGTTATGCAACTGCGTAAGGCTTTAAATGAAGCACGACT
TGAGCGAGATATATTAAAAAAAGCAACAGCGTATTTTGCACAGGAGTCGCTGAAAAATACGCGTTAGTCGAACAATGGCGACAACAATTCCCTGTTGAAG
CGATGTGTCGGGTACCTGGTGTATCCAGGAGCGGTTATTACGACCGGGTACAGCATGCCCCCTCAGACAGAAAACAAAGTGATGAGCGGCTAAAACTGGA
GATTAAGGTGGCACATATCCGCACTCGCGAAACATATGGAACCCGGCGGCTCCAGACGGAGCTGGCAGATAACGGAATTATCGTCGGTCGTGACAGACTG
GCACGTCTTCGTAAGGAGCTGAGGCTGCACTGTAAGCAGAAACGCAAGTTCAGGGCGACCACAAGCTCTGACCACAATCTGCCGGTTACGCCGAATCTGC
TGAATCAGAACTTTACGCCCACAGCACCTAATCAGGTCTGGGTCGCAGATATAACGTATGTTGCCACCCGGGAAGGATGGCTGTATCTCGCTGGCGTCAA
AGATGTTTATACGTGCGAAATTGTCGGTTACGCCATGGGAGAGCGCATGACGAAAGAGTTGACGGGTAAAGCCCTGTTTATGGCGCTCAGGAGCCAGCAC
CCACCTGCCGGGCTAATCCACCACTCCGCTCGAGGTTCACAGTACTGCGCATACGATTACCGGGTCATACAGGAGCAGTCTGGTCTGAAAACATCAATGT
CGCGTAAAGGTAACTGTTACGACAACGCTCCGATGGAAATCTTCTGGGGAACGCTGAAAAATGAAAGCCTGAGCCACTATCGTTTTAAGAGCCGGGATAT
TTCGTCAGCATACGGGAAAACTGATTGAGGTCGGCCTCA

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
303 bp	100 aa	65	367	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSRKTQRYSTEFKAEAVKTVPENQLSISEGASRLSVPEGTLGQWVTAARKGLNTPGSRTVAELESEVMQLRKALNEARLERDILKKATAYFAQESLKNTR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
825 bp	274 aa	304	1128	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

ARYIKKSNSVFCTGVAEKYALVEQWRQQFPVEAMCRVPGVSRSGYYDRVQHAPSDRKQSDERLKLEIKVAHIRTRETYGTRRLQTELADNGIIVGRDRLA
RLRKELRLHCKQKRKFRATTSSDHNLPVTPNLLNQNFTPTAPNQVWVADITYVATREGWLYLAGVKDVYTCEIVGYAMGERMTKELTGKALFMALRSQHP
PAGLIHHSARGSQYCAYDYRVIQEQSGLKTSMSRKGNCYDNAPMEIFWGTLKNESLSHYRFKSRDISSAYGKTD

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1065 bp	354 aa	64	1128	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSRKTQRYSTEFKAEAVKTVPENQLSISEGASRLSVPEGTLGQWVTAARKGLNTPGSRTVAELESEVMQLRKALNEARLERDILKKSNSVFCTGVAEKYA
LVEQWRQQFPVEAMCRVPGVSRSGYYDRVQHAPSDRKQSDERLKLEIKVAHIRTRETYGTRRLQTELADNGIIVGRDRLARLRKELRLHCKQKRKFRATT
SSDHNLPVTPNLLNQNFTPTAPNQVWVADITYVATREGWLYLAGVKDVYTCEIVGYAMGERMTKELTGKALFMALRSQHPPAGLIHHSARGSQYCAYDYR
VIQEQSGLKTSMSRKGNCYDNAPMEIFWGTLKNESLSHYRFKSRDISSAYGKTD

Blast result :

Comments

ISSfl11 is 98 % (ORFA) aa similar to IS600 and 98% (ORFB) aa similar to ISSd1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Jin,Q., Yuan,Z., Xu,J., Wang,Y., Shen,Y., Lu,W., Wang,J., Liu,H., Yang,J., Yang,F., Zhang,X., Zhang,J., Yang,G., Wu,H., Qu,D., Dong,J., Sun,L., Xue,Y., Zhao,A., Gao,Y., Zhu,J., Kan,B., Ding,K., Chen,S., Cheng,H., Yao,Z., He,B., Chen,R., Ma,D., Qiang,B., Wen,Y., Hou,Y. and Yu,J. (2002) Nucleic Acids Res. 30 (20), 4432-4441.