Basic Information
VIS ID
TVIS30002962
Fusion event
HIV-RAVER1 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
p13.2
Reference genome
GRCh37/hg19
Start
10435541/10324865 (Hg38)
End
10435541/10324865 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
RAVER1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-124-3p ; hsa-mir-361-5p ; hsa-mir-92a-3p ; hsa-let-7a-5p
Nearest miRNA
hsa-mir-1227/Upstream/94380; hsa-let-7e/Downstream/78593;
Nearest TSS
ENST00000633603/Upstream/1708; ENST00000612689/Downstream/8571;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1293, chr19-CpG: 185/Downstream/8147
Upstream sequence
tgatgtgtgaacctcaagctgcttcactgtcaagcccaccctccattcagctgggtcacCTAACATTAAAGGTGGGCTCCTCGGAGGACATCACTTcaac
Downstream sequence
gcctgctactcatcagatgctcaacaaatgtttggtgagaccaggcccagtggctcgaatctataatcccagctctttgggaggcaaaggcaggaggatc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate