Basic Information
VIS ID
TVIS30005767
Fusion event
HIV-PDHX 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
chr11
Cytoband
p13
Reference genome
GRCh37/hg19
Start
34982639/34961092 (Hg38)
End
34982639/34961092 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11E
Target gene
PDHX
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-181d-5p ; hsa-mir-193b-3p ; hsa-mir-320a ; hsa-mir-181b-5p ; hsa-mir-15a-5p ; hsa-mir-513a-5p ; hsa-mir-190a-3p ; hsa-mir-410-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-128-3p
Nearest miRNA
hsa-mir-1343/Upstream/19172; hsa-let-7a-2/Downstream/1049006;
Nearest TSS
ENST00000527297/Upstream/44451; ENST00000532159/Downstream/16692;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/44259, chr11-CpG: 53/Downstream/177736
Upstream sequence
gttagtaccatacttttttagtaccacacttttaattagaaatgttttattgtatgctttaaaatctgataacaatagctttgctctttttttaaatcag
Downstream sequence
ttttcttagttcattcttattttattattcttccaaatgaattttaagcagttcgtctagctccatgggtaggagtgaggggtatttttatgggattgta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate