Basic Information
VIS ID
TVIS30014521
Fusion event
HIV-CDKN2C integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr1
Cytoband
p32.3
Reference genome
GRCh37/hg19
Start
51438449/50972777 (Hg38)
End
51438299/50972777 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1B
Target gene
CDKN2C
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-218-5p ; hsa-mir-4740-3p
Nearest miRNA
hsa-mir-12136/Upstream/6427225; hsa-mir-101-1/Downstream/87060;
Nearest TSS
ENST00000473358/Upstream/2833; ENST00000474016/Downstream/129457;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2944, chr1-CpG: 79/Downstream/4862
Nearest cancer related gene
CDKN2C(TSG, No orient, 0)
Upstream sequence
CTGTTCTACAAGATACTTTATAAGAGACCACTGTTAGAGTGAAATATATTCAAACAATAGTAGATAATCTTTGTTATGTGAATTATTTGTATGTTGATAG
Downstream sequence
CAAGTGTTAATACCACATTCTGACTTTTAAAATGTTGGCAGTTTACAAATAGCTGTTCCTTAAATGCTTGATAATAACTGAAAAAGGAACTAACACAGGA
Target sequence
GAAAGTAATATTTTTTCACAACTAAATTATATGTATTTTATATTTGCATGCTGTTCTACAAGATACTTTATAAGAGACCACTGTTAGAGTGAAATATATTCAAACAATAGTAGATAATCTTTGTTATGTGAATTATTTGTATGTTGATAG
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate