Basic Information
VIS ID
TVIS30010691
Fusion event
HIV-XRCC5 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
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
217023564/216158841 (Hg38)
End
217023564/216158841 (Hg38)
Orient
-
Location type
Intronic
Target gene
XRCC5
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-331-3p ; hsa-mir-7-5p ; hsa-mir-100-5p ; hsa-mir-26b-5p ; hsa-mir-7977 ; hsa-mir-4528 ; hsa-mir-584-5p ; hsa-mir-758-5p ; hsa-mir-218-2-3p ; hsa-mir-29b-1-5p ; hsa-mir-361-5p ; hsa-mir-92a-2-5p ; hsa-mir-3927-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-1324 ; hsa-mir-2115-3p ; hsa-mir-31-5p ; hsa-mir-526b-5p ; hsa-mir-623
Nearest miRNA
hsa-mir-10b/Upstream/2400682; hsa-mir-1244-1/Downstream/1741672;
Nearest TSS
ENST00000437798/Upstream/28131; ENST00000485763/Downstream/45175;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/49300, chr2-CpG: 85/Downstream/212461
Nearest cancer related gene
XRCC5(TSG, No orient, 0)
Upstream sequence
AAATAGTGAAAATTTTAATTCATGGATGTATGGCTGTGATGATTACTTTAGTTCTTTTACCTACCTCTAAGAGGAAATTCATTATTGAAATTGAGGAAGC
Downstream sequence
CCATATATGTTTTATTTTCTCTTGGCTTCattttatttttaaaatttatttttGCTTCATTTTTAAAATAACTTCATTTTCAAGCCTCATTGTCTGAAGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate