Basic Information
VIS ID
TVIS30009906
Fusion event
HIV-PTCHD1-AS 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
chrX
Cytoband
p22.11
Reference genome
GRCh37/hg19
Start
22821437/22803320 (Hg38)
End
22821437/22803320 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
PTCHD1-AS
Nearest miRNA
hsa-mir-23c/Upstream/2786133; hsa-let-7f-2/Downstream/5692235;
Nearest TSS
ENST00000429181/Upstream/104863; ENST00000327968/Downstream/196641;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/861737, chrX-CpG: 25/Downstream/528847
Upstream sequence
TATTCCATAATTCAATAAGCTTTATAATATGCCTCTATTAATCTTTTTTTTTCTATTATCCATTTCCATAGATTCCTACCAAAAACAGCTATCATAAATG
Downstream sequence
AAGATTTTTTGGAAATAGGACAAAAGATGTAAATGCCAAGGTAAATAAACATGACAAATATTACAAACTTTTAAGTATTTTTTTAAATTTAAATAGTTTT
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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