Basic Information
VIS ID
TVIS30006460
Fusion event
HIV-KTN1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr14
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
56059363/55592645 (Hg38)
End
56059363/55592645 (Hg38)
Orient
-
Location type
Intronic
Target gene
KTN1
miRNAs that regulate target gene
hsa-mir-34a-5p
Nearest miRNA
hsa-mir-208a/Upstream/714452; hsa-mir-1185-1/Downstream/4054317;
Nearest TSS
ENST00000550708/Upstream/12321; ENST00000554890/Downstream/9147;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/11377, chr14-CpG: 23/Downstream/173582
Upstream sequence
attttggtgtacctgtgtgtgtccttaaaccaatttttggcgcatactgagggatgactgTATGTAGGAGTGTTTTGAAAAAGAAACTTTGGATAGTTAT
Downstream sequence
TCAATAAACTTTGAAGTCCCTCCTCCAGTCCCTATTTGACATCCTAAGTGTTTTGTAAATATTTCACAGTGATGCCAGTGTTTGCATGTGGTTTTCTTAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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