Basic Information
VIS ID
TVIS30008612
Fusion event
HIV-LOC105377329 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
chr4
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
90554339/89633188 (Hg38)
End
90554339/89633188 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4E
Target gene
LOC105377329
Nearest miRNA
hsa-mir-12113/Upstream/2332605; hsa-mir-1243/Downstream/9364199;
Nearest TSS
ENST00000502981/Upstream/5404; ENST00000612706/Downstream/48324;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/325349, chr4-CpG: 70/Downstream/203669
Nearby gene
SNCA(No orient, 90911)
Upstream sequence
TGCTTTCATATGTCTTGGTGGAAATTAGCTAGAAACAGTTTATCTGTCCTTGAAAAAACATTTTTAAATTGGCTGTAAAGTTTCATCTTCCAGATGGGCA
Downstream sequence
GCCTTAAGCGGGCCCTGCTGAGATGGCACATTAAAGGCCTAAATATGCCATCCGTCTACACATGAATTCCCCAGGTTGTAAATATTTAAAGAGTTGCTGG
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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