Basic Information
VIS ID
TVIS30007352
Fusion event
HIV-ZNF236 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
chr18
Cytoband
q23
Reference genome
GRCh37/hg19
Start
74565082/76853126 (Hg38)
End
74565082/76853126 (Hg38)
Orient
-
Location type
Intronic
Target gene
ZNF236
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-142-3p ; hsa-mir-132-3p ; hsa-mir-128-3p ; hsa-let-7e-5p ; hsa-mir-4732-5p ; hsa-mir-4668-5p ; hsa-mir-3148 ; hsa-mir-6783-5p ; hsa-mir-548n ; hsa-mir-6872-3p ; hsa-mir-670-3p ; hsa-mir-6836-3p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-222-3p ; hsa-mir-221-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-4797-3p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p
Nearest miRNA
hsa-mir-1-2/Upstream/3999744;
Nearest TSS
ENST00000575820/Upstream/1353; ENST00000583488/Downstream/27156;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/29177, chr18-CpG: 23/Downstream/41861
Upstream sequence
gggagcacctTTATAAAATTTACATTGTGAAAGCTGACTTCACACtttctgttttttgtttttttttttgagatggagtttcgcttttgttgcccaggct
Downstream sequence
ggagtgcaatggcgccatcttaactcacttcaacctctgcctcctgggttcaagagattctcgtgccatagcctcccgaatagctgggattacaggtgcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate