ISfinder

ISKol7

Family IS3
Group IS150

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

Accession number	Transposition	Origin	Host
NC_012785	ND	Kosmotoga olearia	Kosmotoga olearia TBF 19.5.1

DNA section

IS Length : 1223 bp

Ends

IR Length : 22/27

IRL : TATACTGCTCCCCTGAAGAATTGGACAGGTAAAAAGTAGAGAGATAAAAT
IRR : TGTAATGCTCCCCGAAAAACTGGACAAAAAATCAAGCAATTTTGTGTAGA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GAGGGAAAAA	GAGC	TGTGATAGAA	4
TGCTTCTTTT	AACCA	ATTTTCTGTA	5
GTATGGGAAA	GAT	TTTTCGGGCA	3
AGGTTTTGAA	TATT	GTCCGTGCTT	4

DNA sequence

TATACTGCTCCCCTGAAGAATTGGACAGGTAAAAAGTAGAGAGATAAAATAAAGGCAAGGGGGTGCAGTTAATGGCAAAGAAACTCTCGACAGAAGAAAA
GATGGCAATAATTCTGGAAGGGCTTCGTCGAGAAAAGAGCGTTTCTCAAATCTGCAGAGAACATGGGATTTCACAAGCTCAGTATTACAAATGGCGCGAC
AGGTTTCTCGAAGGTGCCAAAGAAGGCTTGGAAAACGGAAAGAAATCCAGGGTAAAGCAGCTCGAAGAAAAAATCGAAGAACTCCAGAAGGTAATTGGAA
AACAGACCATCGTCATTGAGACCTTAAAAAAAACAGTAGTGCATCCAGGCAACGGGAAATAGTGACATTGCTCCTTAATGAGGGATTTAGCGTTTCAGAA
GCTCTGAGGTATTTGAAAATCAGCCGGAGCACGTATTACTACAAGCCCAGGGAATACAGTCGAAGAACGAATGATGAAGAAATACTCAAAGAAATAGAAG
AACTCAAACGAGAACACCCTTACTGGGGATATCGTCGAATCTGGGCGATGTTGAGGAAAAAGGGCAACAAGCTCAACCGAAAGAGAGTATACCGGATAAT
GAAAGAGAATGGATTGCTGTTCAAAGTTGAGCACAAAAAAGCTTGTAGAACCATTCAAAAAAAGATAAAGCCAACCAGGCCCAGAGAGGTGCTTGGGATC
GACATGACAAAAGTATTCACAAGAGATGCTGGTTGGGCATATTACATAGCAGTGATAGATTGGTACACAAGAGAAATCCTTGGATCGGAAATAAGTCTCA
GGTGTAGGACGGAAGAATGGTTGAAAGCGTTGGACAGAGCCTTAAATGAGGGGTATCCCGAAGGTGTGCGGGGCGAAGAAGTAATACTGGTGAGCGATAA
CGGCAGCCAACCGACAAGCACGAAGTTTCTGAAAGAATGTGCTGTACTGGGGATAAAACAGATATTCACGAGCTACAACAACCCAAAAGGTAATGCCAAC
ACGGAAAGATATTTCAGAACATACAAAGAAGAAGTTGCATGGGTACTGGACAATCCGAGTTACGAAGAGCTAATCGAAAAGACCAAAACTTTTGAAACGT
TTTACAATGAAGAATATCCACACAGTGCACTAGGTTACAAGAGTCCCAAAGAGGTATTCGAAGAATCCGTGAGTCTACACAAAATTGCTTGATTTTTTGT
CCAGTTTTTCGGGGAGCATTACA

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
291 bp	96 aa	72	362	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MAKKLSTEEKMAIILEGLRREKSVSQICREHGISQAQYYKWRDRFLEGAKEGLENGKKSRVKQLEEKIEELQKVIGKQTIVIETLKKTVVHPGNGK

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
873 bp	290 aa	320	1192	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

DLKKNSSASRQREIVTLLLNEGFSVSEALRYLKISRSTYYYKPREYSRRTNDEEILKEIEELKREHPYWGYRRIWAMLRKKGNKLNRKRVYRIMKENGLL
FKVEHKKACRTIQKKIKPTRPREVLGIDMTKVFTRDAGWAYYIAVIDWYTREILGSEISLRCRTEEWLKALDRALNEGYPEGVRGEEVILVSDNGSQPTS
TKFLKECAVLGIKQIFTSYNNPKGNANTERYFRTYKEEVAWVLDNPSYEELIEKTKTFETFYNEEYPHSALGYKSPKEVFEESVSLHKIA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1121 bp	373 aa	72	1192	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAKKLSTEEKMAIILEGLRREKSVSQICREHGISQAQYYKWRDRFLEGAKEGLENGKKSRVKQLEEKIEELQKVIGKQTIVIETLKKNSSASRQREIVTL
LLNEGFSVSEALRYLKISRSTYYYKPREYSRRTNDEEILKEIEELKREHPYWGYRRIWAMLRKKGNKLNRKRVYRIMKENGLLFKVEHKKACRTIQKKIK
PTRPREVLGIDMTKVFTRDAGWAYYIAVIDWYTREILGSEISLRCRTEEWLKALDRALNEGYPEGVRGEEVILVSDNGSQPTSTKFLKECAVLGIKQIFT
SYNNPKGNANTERYFRTYKEEVAWVLDNPSYEELIEKTKTFETFYNEEYPHSALGYKSPKEVFEESVSLHKIA

Blast result :

Comments

ISKol7 is 50% aa similar to IS120. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2009)
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Chertkov,O., Brettin,T., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G. and Noll,K. (2009) Direct submission GenBank.