Basic Information
VIS ID
TVIS30008536
Fusion event
HIV-HTT 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
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
3179279/3177552 (Hg38)
End
3179279/3177552 (Hg38)
Orient
+
Location type
Intronic
Target gene
HTT
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-421 ; hsa-mir-324-5p ; hsa-mir-106b-5p ; hsa-mir-17-5p ; hsa-mir-16-5p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-4800/Upstream/927396; hsa-mir-12113/Downstream/2745723;
Nearest TSS
ENST00000502981/Upstream/17190; ENST00000513639/Downstream/795;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/102721, chr4-CpG: 73/Downstream/71348
Upstream sequence
TTAAGTGAATGTTTAAACTACTGTTAGGCATTTTTGCTGTTTTCTTTAAATGGAAATCTGACTAACATACTGTGCATTTTTGCTTCTCTTAAAAATTAAT
Downstream sequence
GTATATCTCAAGACTTGTTTGGAAGTAGTTATGTATCTGAAAATTCCATATGTTGTCAGTATTCATTGCACATTTCAAAGCATTTAATTGTGTTGACAGA
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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