Basic Information
VIS ID
TVIS30013195
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
3158780/3157053 (Hg38)
End
3158780/3157053 (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/906897; hsa-mir-12113/Downstream/2766222;
Nearest TSS
ENST00000502981/Upstream/28714; ENST00000509618/Downstream/3309;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/82222, chr4-CpG: 73/Downstream/91847
Upstream sequence
ATACTTGAATATTTTCATACTAGAATACTTTAAAAAATCATGATTTCCAGTAATCTCTTTAAAACTTGGCAAGTTATTTTGATCTAAAAGTTTATCTTTT
Downstream sequence
GTGTGCATATTTTTAAAGCTTCTAGACAATCTGATACCTCAGGTCCTGTTACAACAAGTAAATCCTCATCACTGGGGAGTTTCTATCATCTTCCTTCATA
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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