Basic Information
VIS ID
TVIS30011498
Fusion event
HIV-TRIM3 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
chr11
Cytoband
p15.4
Reference genome
GRCh37/hg19
Start
6485163/6463933 (Hg38)
End
6485163/6463933 (Hg38)
Orient
-
Location type
Intronic
Target gene
TRIM3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-210/Upstream/2607792; hsa-let-7a-2/Downstream/770833;
Nearest TSS
ENST00000527297/Upstream/5593; ENST00000528908/Downstream/9960;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/6985, chr11-CpG: 22/Downstream/9612
Nearest cancer related gene
TRIM3(TSG, No orient, 0)
Upstream sequence
AGAGGGTGGTTGTCCCCAGGCTGACAGAAGAACTTGAATGGACAGGAAAACTGAGGCCATTTCCAGTTGATAAAGGAGAGTGGGCAGTGGAGCTGGAATC
Downstream sequence
TCAAAGAGCagggctggcagggaagcagtatctctggtgcagagccaggtttccgttggggcagaaggcagaggaaaagtgcggatagaggCAGTGGTGG
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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