Basic Information
VIS ID
TVIS30007528
Fusion event
HIV-XRCC1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr19
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
44074482/43570330 (Hg38)
End
44074482/43570330 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
XRCC1
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-92b-3p ; hsa-mir-193b-3p ; hsa-mir-186-5p ; hsa-mir-574-5p ; hsa-mir-6867-5p ; hsa-mir-142-3p ; hsa-mir-5700
Nearest miRNA
hsa-mir-10395/Upstream/1219125; hsa-let-7e/Downstream/1083356;
Nearest TSS
ENST00000633603/Upstream/9381; ENST00000600242/Downstream/4308;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/34726, chr19-CpG: 38/Downstream/5100
Upstream sequence
TAAAAATGACACACCTCCAGTGACACACCAGAGTTATATCTGGGTCTTGTCCAAGCCACCCCTCCAGCCCAGGAGTAGTTAGCAAAGAGGTTGGCATTTC
Downstream sequence
CCTCTGGGAGCAGGTGATGAACAGACAACAGAGCCTGCTGTGGCTACTGCAAACAACCAGGTGTGTGGGGCTGTCATAAGCAGATGGCTAAGCCCCATGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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