ISfinder Mirror Site

ISLse4

Family IS3
Group IS150

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

Accession number	Transposition	Origin	Host
CP063071.1	ND	Listeria seeligeri	Listeria seeligeri Listeria seeligeri strain Sr73

DNA section

IS Length : 1265 bp

Ends

IR Length : 31/41

IRL : GGCACTGCCACTAAAAAATGAGAATAAAAGAAAAACACTTTCGTTGAATT
IRR : TGCACTGACATGGGAAAGTGAGAATTGAATAAAAACACTTTTGATTAGGC

Comments : Ends based on multiple copies of the IS and empty insertion sites in other strains.

Insertion site

Left flank	Direct repeat	Right flank	DR Length
tttaaaacaacagacatttt	ATGAC	aacggagggtttttatgatt	5
cacaaaaaaagccttctata	TTCAC	tataaaaggcctattaattg	5
acataaaaaaacacctagct	TAGC	taagtgtttcgactttattt	4
atgcaaaaaaatccccagct	TTTA	tagctggagattttttattt	4

DNA sequence

GGCACTGCCACTAAAAAATGAGAATAAAAGAAAAACACTTTCGTTGAATTCATGTAAAATGAAATTAACGGAGGTGTTTTTTGTGAGTACAAGAGTTATG
TATCCAGTAGAAATAAAAGAAGAAGCAATCAAAATGAAGCTAGCTGGCAAAGCAACCAAAGAAATTATGGACACTTTAAATATCAAGAATCCAACGCAAG
TGAAAATTTGGTGGCGCTGGTATCGAAATGGAGAAACCCATCGGTTTCATCAAGGGGTAGGAAAACAATATAAATATCAAAAAGGTCTCGTTGAATTACC
AGAAATAGAGCAATTAAAAATAGCTCTTCGACAAAAAGAAGTGGAACTGGAAATATTAAAAAAGTACAAGGCGTTGGAAAGGAAGTGAGTCCCTCCTATT
TTGTTTCCTTAGTAGAAAATCTAAAAGGAACCTATCGAGTCAAAGAAATCTGCCAAGCATTACAAGTTCCAATATCCACCTATTATCGCTGGAAAAAGAA
AGATTTTACACGGACCACCGTAGAAAACAAAGTGGGGAAACTGTGTAAAACTTATCGTTATACGTATGGTTATCGAAAGATTGCTGCGCTAATGAAACAA
GAAGAAACTATTGGTATCAATCAAGTTCAACGCATTATGCAGAAACACAGTTGGCAATGCCAAGTGAAAGTAAAAAAGAAAAACCGACCTGGCTCCGCCT
ATTATCAAACAGGAAATCACTTAAAGCGATGCTTTAAAGCTACTCGACCACTGGAAAAATTAACAACAGACATCACGTATCTTTATTTCGGTAATTGTCG
TCTGTATCTATCTAGCATTATGGATCTATACAACGGAGAAATTGTCGCCTATTCCATTGGAGAAAAACAAGACACAGCACTTGTGTTAGACACATTGAAT
CGATTAGATCTTCCGAAAGGGAGTTTACTCCACAGTGACCAAGGCTCTGTGTACACTTCCTATGAGTATTATCAATGTTGTCAAAAGAAAAACGTTATCC
GCAGTATGTCCCGAAAAGGGACACCCGCAGATAACGCTCCCATAGAATGTTTCCATTCCTCGCTAAAGTGTGAAACATTCTACCTCAATAAAGCGTATAA
ATACGCTAAATCTATTGTAATCCAAATTGTAAAAGATTACATTAAATATTATAATGAAAAAAGAATTCAACAAAAATTAGGCTACCAGTCTCCCGTTAAT
TTCAGGAAACAAGCAGCCTAATCAAAAGTGTTTTTATTCAATTCTCACTTTCCCATGTCAGTGCA

Recoding section

Recoding by frameshift
Frame -1
Type translational
Experimentally demonstrated No

Stimulators :

Shine-Dalgarno sequence :
Secondary structure :

Recoding motif :

Protein section

ORF number : 3

ORF 1

Length		Begin	End	Strand	Fusion ORF
306 bp	101 aa	83	388	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

VSTRVMYPVEIKEEAIKMKLAGKATKEIMDTLNIKNPTQVKIWWRWYRNGETHRFHQGVGKQYKYQKGLVELPEIEQLKIALRQKEVELEILKKYKALER
K

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
927 bp	308 aa	295	1221	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

ITRNRAIKNSSSTKRSGTGNIKKVQGVGKEVSPSYFVSLVENLKGTYRVKEICQALQVPISTYYRWKKKDFTRTTVENKVGKLCKTYRYTYGYRKIAALM
KQEETIGINQVQRIMQKHSWQCQVKVKKKNRPGSAYYQTGNHLKRCFKATRPLEKLTTDITYLYFGNCRLYLSSIMDLYNGEIVAYSIGEKQDTALVLDT
LNRLDLPKGSLLHSDQGSVYTSYEYYQCCQKKNVIRSMSRKGTPADNAPIECFHSSLKCETFYLNKAYKYAKSIVIQIVKDYIKYYNEKRIQQKLGYQSP
VNFRKQAA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1139 bp	379 aa	83	1221	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

VSTRVMYPVEIKEEAIKMKLAGKATKEIMDTLNIKNPTQVKIWWRWYRNGETHRFHQGVGKQYKYQKGLVELPEIEQLKIALRQKEVELEILKKVQGVGK
EVSPSYFVSLVENLKGTYRVKEICQALQVPISTYYRWKKKDFTRTTVENKVGKLCKTYRYTYGYRKIAALMKQEETIGINQVQRIMQKHSWQCQVKVKKK
NRPGSAYYQTGNHLKRCFKATRPLEKLTTDITYLYFGNCRLYLSSIMDLYNGEIVAYSIGEKQDTALVLDTLNRLDLPKGSLLHSDQGSVYTSYEYYQCC
QKKNVIRSMSRKGTPADNAPIECFHSSLKCETFYLNKAYKYAKSIVIQIVKDYIKYYNEKRIQQKLGYQSPVNFRKQAA

Blast result :

Comments

ISLse4 is 94% aa (transposase) similar to ISLmo1.
ISLse4 was identified by in silico sequence analysis of Listeria seeligeri strain Sr73, where it is present in multiple copies.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Chmielowska, C. and Bartosik, D. (2021) Direct submission
2] Chmielowska C, Korsak D, Szmulkowska B, Krop A, Lipka K, Krupi?ska M, Bartosik D. Genetic Carriers and Genomic Distribution of cadA6-A Novel Variant of a Cadmium Resistance Determinant Identified in Listeria spp. Int J Mol Sci. 2020 Nov 18;21(22):8713. doi: 10.3390/ijms21228713.