Basic Information
VIS ID
TVIS30002306
Fusion event
HIV-CASC4 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
chr15
Cytoband
q15.3
Reference genome
GRCh37/hg19
Start
44675157/44382959 (Hg38)
End
44675157/44382959 (Hg38)
Orient
-
Location type
Intronic
Target gene
CASC4
miRNAs that regulate target gene
hsa-mir-151a-3p ; hsa-mir-125a-5p ; hsa-mir-30c-5p ; hsa-mir-381-3p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-1233-1/Upstream/589200; hsa-mir-10393/Downstream/334885;
Nearest TSS
ENST00000557528/Upstream/2095; ENST00000559151/Downstream/7492;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/93614, chr15-CpG: 67/Downstream/44029
Upstream sequence
ttgcagtgagccaagattgtgccactgcactccagcctgggcaacagagcgagactctgtcaaaaaaaaaaaaaaaaaagaaaaGAGCCTATTGAGTTTT
Downstream sequence
AAACCCTCACTCCATATTATTTTCCATTTATCATTAATGTATATGGAGAGTTGAAATCAATGCATGCACAATTTTGTGATTTACTTTGACATTATTTCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate