Basic Information
VIS ID
TVIS30003780
Fusion event
HIV-RARS 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
chr5
Cytoband
q34
Reference genome
GRCh37/hg19
Start
167928112/168501107 (Hg38)
End
167928112/168501107 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
RARS
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-155-5p ; hsa-mir-877-3p ; hsa-mir-324-5p ; hsa-mir-331-3p ; hsa-mir-100-5p ; hsa-mir-99a-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10397/Upstream/335178; hsa-mir-103a-1/Downstream/59789;
Nearest TSS
ENST00000502646/Upstream/3889; ENST00000338333/Downstream/28009;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/14471, chr5-CpG: 30/Downstream/28107
Upstream sequence
gaatgaatttattcagaaatgtgtaggaccAAAATGATGAGAAGTGTACAATGAGATGTAATAGAATGTTTGGATAGAGTGCCAGACCCAGTTCCCTAGT
Downstream sequence
TCTCCAAATTTATTTATGATTTTAAGGCGATTTcaagttttctaacttgacataatagttttaaagatttctttgaagagtaaatgggtaaagaacaacc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate