Basic Information
VIS ID
TVIS30004707
Fusion event
HIV-CHAF1A 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
4407272/4407275 (Hg38)
End
4407272/4407275 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
CHAF1A
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-590-3p ; hsa-let-7b-5p ; hsa-mir-92a-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p
Nearest miRNA
hsa-mir-1227/Upstream/445763; hsa-let-7e/Downstream/38703;
Nearest TSS
ENST00000633603/Upstream/4558; ENST00000587739/Downstream/2170;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/4181, chr19-CpG: 51/Downstream/38739
Upstream sequence
gccactgcactccagcctggtgacagagcaagactctgtctcaaaacaaacaaCTCCCCCCACACCCCCCCCAAAAAAAAACAGGTTTTTATTTGGTCTA
Downstream sequence
TTACATGATGAAATAGTTAATAAAAGATGCAATGGCATTGAAGTAAGTGAACATAGGTTCTTTGGGAAATTCACTCTCCAAAGTGTTTCTGTGTTCCTCC
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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