Basic Information
VIS ID
TVIS30005595
Fusion event
HIV-PCDH15 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
chr10
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
55946130/54186370 (Hg38)
End
55946130/54186370 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
PCDH15
Nearest miRNA
hsa-mir-1265/Upstream/2886715; hsa-mir-107/Downstream/421504;
Nearest TSS
ENST00000439456/Upstream/279153; ENST00000422842/Downstream/9476;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/1314704, chr10-CpG: 36/Downstream/1441938
Upstream sequence
TCATAAAACACTTCTTTAAGTCTGATGTCAAGGACTGAGGCAAGAGCAAAGAATAGAAAATTGTTAAATGTGTTTAATTTGAAAATAATAGAACTCATAA
Downstream sequence
TTTCAAAATTTCTATGTAAAATACAAAAGTTGTAATGCACACTACTATAATAAAATGTGAACATGATTTGATCCACAATATACTTGAATCTGCCCATCTT
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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