Basic Information
VIS ID
TVIS30004972
Fusion event
HIV-CHD7 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
chr8
Cytoband
q12.2
Reference genome
GRCh37/hg19
Start
61748072/60835513 (Hg38)
End
61748072/60835513 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHD7
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-98-5p ; hsa-mir-877-3p ; hsa-mir-454-3p ; hsa-mir-615-3p ; hsa-let-7e-5p ; hsa-let-7b-5p ; hsa-mir-155-5p ; hsa-mir-219a-5p ; hsa-mir-759 ; hsa-mir-4782-3p ; hsa-mir-6766-3p ; hsa-mir-4683 ; hsa-mir-5186 ; hsa-mir-544a ; hsa-mir-6857-5p ; hsa-mir-4450 ; hsa-mir-5187-5p ; hsa-mir-5589-5p ; hsa-mir-5189-3p ; hsa-mir-4731-5p ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-3692-5p ; hsa-mir-1322 ; hsa-mir-8087 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-1246
Nearest miRNA
hsa-mir-124-1/Upstream/17939238; hsa-mir-10400/Downstream/879275;
Nearest TSS
ENST00000518652/Upstream/25907; ENST00000527921/Downstream/15224;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/120998, chr8-CpG: 81/Downstream/74286
Upstream sequence
ATAGTTCAAGATAGAATTTTTGTATCTTAGGAAAAATTACCAGATGGGAATGAATGTGGAGGGAGATTTAGAGATTACAATAGTTGTATGCTTAGGTCCC
Downstream sequence
CCACAAATATTCCAGGAAATTGTCCTGGAAATAAATTCCTCTTTTTGTAGTTCCTTTGCCTATATTAATATGCAATTATAGACCCAAACTACTATTGCTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate