Basic Information
VIS ID
TVIS30012538
Fusion event
HIV-RFX1 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
p13.12
Reference genome
GRCh37/hg19
Start
14111356/14000544 (Hg38)
End
14111356/14000544 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
RFX1
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-346 ; hsa-mir-124-3p ; hsa-mir-3978 ; hsa-mir-92a-1-5p ; hsa-mir-3148 ; hsa-mir-6124 ; hsa-mir-8069 ; hsa-mir-758-5p ; hsa-mir-15a-3p ; hsa-mir-4753-5p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-4776-3p ; hsa-mir-578 ; hsa-mir-587 ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-6801-5p ; hsa-mir-5590-5p ; hsa-mir-153-5p ; hsa-mir-10b-3p ; hsa-mir-6826-5p ; hsa-mir-370-5p
Nearest miRNA
hsa-mir-10395/Upstream/125533; hsa-let-7e/Downstream/72817;
Nearest TSS
ENST00000633603/Upstream/36489; ENST00000622575/Downstream/5718;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/36532, chr19-CpG: 147/Downstream/5176
Upstream sequence
ccactgcaTGcatacaaacacacacatacacatacacatacacacacacacactcgcacacaTCTCCTAATgactgggcgcagtgctcacatctataatc
Downstream sequence
ccaccactttgggagtccaagattggaggatcacttgagcccaggagttcaagaccagcctaagcaacaaagtgacgccttatctctataaaaaagtgaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate