Basic Information
VIS ID
TVIS30014934
Fusion event
HIV-RARG 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
53619733/53225949 (Hg38)
End
53619784/53225949 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
RARG
miRNAs that regulate target gene
hsa-mir-182-5p ; hsa-mir-124-3p ; hsa-mir-335-5p ; hsa-mir-320c ; hsa-mir-34c-5p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/168937; hsa-let-7i/Downstream/765789;
Nearest TSS
ENST00000382841/Upstream/5536; ENST00000635789/Downstream/6239;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/4023, chr12-CpG: 37/Downstream/5896
Nearby gene
RARG(No orient, 5583)
Upstream sequence
CTGGGGAACAAGTAGGGATCTGCACAGCATGCAGGCTCTATGCCAGACCTGCAGGGAGAGGAGGAGCCCAGATCCACATCGCTGGAGGAGAGGATGCTTC
Downstream sequence
CTTTGCAGTCATTTCCATCCTCCCCAGAACCAAGAAGCACAGTCTCCTGACCCCACACATCTTTGGGGACCTGGCACAGGATTTCTTTCCCCTTTTTGCA
Target sequence
TGGAACACCCCCTCTGCCTCTCTGGATTACTTATGGTACAAAAGCTACCTC
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