Basic Information
VIS ID
TVIS30004488
Fusion event
HIV-CHD8 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
q11.2
Reference genome
GRCh37/hg19
Start
21883645/21415486 (Hg38)
End
21883645/21415486 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHD8
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-1296-5p ; hsa-mir-877-5p ; hsa-mir-423-5p ; hsa-mir-615-3p ; hsa-mir-218-5p ; hsa-mir-4477a ; hsa-mir-6783-5p ; hsa-mir-4480 ; hsa-mir-513c-3p ; hsa-mir-3606-3p ; hsa-mir-513a-3p ; hsa-mir-155-5p ; hsa-mir-365a-3p ; hsa-mir-365b-3p
Nearest miRNA
hsa-mir-6717/Upstream/392100; hsa-mir-1185-1/Downstream/1541464;
Nearest TSS
ENST00000550708/Upstream/2480; ENST00000487242/Downstream/1120;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/31095, chr14-CpG: 22/Downstream/40597
Upstream sequence
atactcaggaggctgaggcagaagaatagctcaagcccagaagttcatagtgtgctacgatcatatctatgaatagccactgcactttagcctgggtaac
Downstream sequence
acagttagactctatttcaaaaataaataaataaataaataaataaataaataaataaaaataataataataataaaaaGCCCTCACCTCCTTCTTCACA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate