Basic Information
VIS ID
TVIS30010177
Fusion event
HIV-RAG1 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
chr11
Cytoband
p12
Reference genome
GRCh37/hg19
Start
36591843/36570293 (Hg38)
End
36591843/36570293 (Hg38)
Orient
-
Location type
Intronic
Target gene
RAG1
miRNAs that regulate target gene
hsa-mir-186-5p ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4795-5p ; hsa-mir-1283 ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-548g-3p ; hsa-mir-548av-3p ; hsa-mir-5696 ; hsa-mir-4729 ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-6771-3p ; hsa-mir-4694-3p
Nearest miRNA
hsa-mir-1343/Upstream/560089; hsa-let-7a-2/Downstream/6989363;
Nearest TSS
ENST00000527297/Upstream/2268; ENST00000530697/Downstream/24200;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/59826, chr11-CpG: 49/Downstream/6741596
Upstream sequence
atcaaagataatatattcaaaaattttaaagatattgctaaattgtctagtaggtattttataccaatttatactcctcccaagaatgtatggagatatc
Downstream sequence
ttaatttctccatgccttcattaatgctgaaccatataagtagttttaatctttgctaattgaatagataaaaaatATCTAATCTAAGTCTAGTTCTTAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate