Basic Information
VIS ID
TVIS30000336
Fusion event
HIV-CASC4 integration
Validated
No
Detection method
NG-SGS
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30024859
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr15
Cytoband
q15.3
Reference genome
GRCh37/hg19
Start
44653810/44361612 (Hg38)
End
44653810/44361612 (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/567853; hsa-mir-10393/Downstream/356232;
Nearest TSS
ENST00000557528/Upstream/23848; ENST00000559550/Downstream/19252;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/72267, chr15-CpG: 67/Downstream/65376
Upstream sequence
gaatagaccaataacaggagctgaaattgtggcaataatcaatagcttaccaacgaaaaagagtccaggaccagatggattcacagccgaattctaccag
Downstream sequence
aggtacaaggaggaactggtaccattccttctgaaactattccaatcaatagaaaaagagggaatcctccctaactcattttatgaggccagcatcatcc
Reference
Sharaf, R., et al.HIV-1 proviral landscapes distinguish posttreatment controllers from noncontrollers. J Clin Invest,2018,128(9): 4074-4085.
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