Basic Information
VIS ID
TVIS30016073
Fusion event
HIV-APOBEC3C 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
chr22
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
39482729/39086724 (Hg38)
End
39482664/39086724 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
APOBEC3C
miRNAs that regulate target gene
hsa-mir-92a-3p ; hsa-mir-1910-3p ; hsa-mir-1911-3p ; hsa-mir-24-3p ; hsa-mir-3184-5p ; hsa-mir-3621 ; hsa-mir-3664-3p ; hsa-mir-3934-3p ; hsa-mir-423-5p ; hsa-mir-4283 ; hsa-mir-4437 ; hsa-mir-4459 ; hsa-mir-4514 ; hsa-mir-4645-5p ; hsa-mir-4673 ; hsa-mir-4692 ; hsa-mir-4779 ; hsa-mir-5008-5p ; hsa-mir-6085 ; hsa-mir-6089 ; hsa-mir-6511a-5p ; hsa-mir-665 ; hsa-mir-6744-5p ; hsa-mir-6813-5p ; hsa-mir-1273f ; hsa-mir-129-5p ; hsa-mir-185-3p ; hsa-mir-3674 ; hsa-mir-3675-5p ; hsa-mir-4489 ; hsa-mir-4732-5p ; hsa-mir-6832-5p
Nearest miRNA
hsa-mir-1286/Upstream/1097871; hsa-let-7a-3/Downstream/1727159;
Nearest TSS
ENST00000624155/Upstream/6089; ENST00000474235/Downstream/10500;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/159201, chr22-CpG: 107/Downstream/58293
Upstream sequence
AAGTTACTAGAAAGTGGGGAGGGTCGGCATCCCTGTGGGAAAGGCCTTGATCCTCTGCCTGCAGAGGCGATGGCTGCACTCTGGACCTGACTTTGGGGTC
Downstream sequence
GACGGGAAGAGAGAGGCCAGGCCAGGAGATGTGGACCTGGGGAGGGCGGGGAGGGTGGCTGGAAGTGGAAGCAGAACTTGGGGCTTCCAGAAAAAATGAG
Target sequence
TGGGAAAGGCCTTGATCCTCTGCCTGCAGAGGCGATGGCTGCACTCTGGACCTGACTTTGGGGTC
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