Basic Information
VIS ID
TVIS30002217
Fusion event
HIV-ARID4A 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
q23.1
Reference genome
GRCh37/hg19
Start
58797900/58331182 (Hg38)
End
58797900/58331182 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA14B
Target gene
ARID4A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-6771-3p
Nearest miRNA
hsa-mir-208a/Upstream/3452989; hsa-mir-1185-1/Downstream/1315780;
Nearest TSS
ENST00000550708/Upstream/31645; ENST00000553355/Downstream/105;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/31514, chr14-CpG: 70/Downstream/64641
Upstream sequence
GAGTATAGTCATATGTAATGAAGGGCATACGCTATTTCTTTCCTTTTACTTCCCCTGCAGTATTTGGTTTTTTTACACTCTGAAATCAGAATGGCGGTTC
Downstream sequence
ATACTTACAGGCTGCCTACAGAGTTGCCATAGTAACGTGCTGTTGGTTTTAAGTGAGCATGCTCGGAAAGACAGGAAGGTTTAGCAGAGGCTTGGCAGTT
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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