Basic Information
VIS ID
TVIS30014597
Fusion event
HIV-COPA 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
q23.2
Reference genome
GRCh37/hg19
Start
160291145/160321355 (Hg38)
End
160291031/160321355 (Hg38)
Orient
-
Location type
Intronic
Target gene
COPA
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-744-5p ; hsa-mir-421 ; hsa-mir-92b-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-23b-3p ; hsa-mir-10a-5p ; hsa-mir-1260b ; hsa-mir-127-5p ; hsa-mir-3591-5p ; hsa-mir-376b-3p ; hsa-mir-376a-3p ; hsa-mir-7153-5p ; hsa-mir-142-3p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-589-5p ; hsa-mir-539-5p ; hsa-mir-4712-3p ; hsa-mir-3976 ; hsa-mir-648 ; hsa-mir-4517 ; hsa-mir-3652 ; hsa-mir-4430 ; hsa-mir-4634 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-4746-3p ; hsa-mir-4695-3p
Nearest miRNA
hsa-mir-101-1/Upstream/421276; hsa-mir-1182/Downstream/905831;
Nearest TSS
ENST00000473358/Upstream/10833; ENST00000465223/Downstream/18853;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/58694, chr1-CpG: 38/Downstream/21783
Upstream sequence
attgaaggccttttctctacggaccagaaggcaaggatgcccacttttaccacttttattcgacaaaacactagaagtcctggccaggtcaagtaggtat
Downstream sequence
gagaaacaaataaaggacaaacaaattggaaaaattacccttgttcacagatgacattatcatatacttagaaaaacctaagactcaaccaaaatgataa
Target sequence
cttaatgggaaaaaattgaaggccttttctctacggaccagaaggcaaggatgcccacttttaccacttttattcgacaaaacactagaagtcctggccaggtcaagtaggtat
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