Basic Information
VIS ID
TVIS30002242
Fusion event
HIV-PCNX1 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
chr14
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
71464320/70997603 (Hg38)
End
71464320/70997603 (Hg38)
Orient
-
Location type
Intronic
Target gene
PCNX1
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-17-5p ; hsa-mir-3941 ; hsa-mir-374a-5p ; hsa-mir-510-3p ; hsa-mir-6831-3p ; hsa-mir-4637 ; hsa-mir-590-3p ; hsa-mir-4282 ; hsa-mir-2355-3p ; hsa-mir-4646-3p ; hsa-mir-3912-5p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-5688 ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-208a/Upstream/3555673; hsa-mir-1185-1/Downstream/1519217;
Nearest TSS
ENST00000550708/Upstream/19225; ENST00000554707/Downstream/15428;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/88918, chr14-CpG: 116/Downstream/322535
Upstream sequence
TTACATATGAACTGCCTTTCCAGTTCTGAAGATTGAAAAAACCTCTTCTGATTGGAGACGACTTTAGCATCTGTTGGTGGATATTCAGGATATTCTCTTG
Downstream sequence
TAATTTGGATTTTATCTTTTCTGTTAACTGCCACCTTAAACTAGGTCTCGCTCTATCGTATTTGAATGGTGCCAAATTGAATACTTAGTAATAATTAGCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate