Basic Information
VIS ID
TVIS30011516
Fusion event
HIV-LRRC4C 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
p12
Reference genome
GRCh37/hg19
Start
40942269/40920719 (Hg38)
End
40942269/40920719 (Hg38)
Orient
+
Location type
Intronic
Target gene
LRRC4C
Nearest miRNA
hsa-mir-1343/Upstream/4910515; hsa-let-7a-2/Downstream/2638937;
Nearest TSS
ENST00000527297/Upstream/600989; ENST00000524493/Downstream/473876;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/4410252, chr11-CpG: 49/Downstream/2391170
Upstream sequence
GAGTGGCCAGTCTCATGTTTACTTCTAATAGGAAACTGATGACTCAATTCACCCATTTATCTCAGAGCAGCCCAAACATGGATATCACAATGAGATCTTt
Downstream sequence
gtggtacgtagaataacgtgcctcccatccgaatatgaccatgtcctaaattttggaacctgtgagcatgttaccttgaatcgttacattctagaccatg
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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