Basic Information
VIS ID
TVIS30005062
Fusion event
HIV-RERE 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
chr1
Cytoband
p36.23
Reference genome
GRCh37/hg19
Start
8620166/8560107 (Hg38)
End
8620166/8560107 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
RERE
miRNAs that regulate target gene
hsa-mir-200b-3p ; hsa-mir-429 ; hsa-mir-92b-3p ; hsa-mir-301a-3p ; hsa-mir-320a ; hsa-mir-4681 ; hsa-mir-4722-3p ; hsa-mir-4763-5p ; hsa-mir-4769-3p ; hsa-mir-596 ; hsa-mir-6501-3p ; hsa-mir-6727-3p ; hsa-mir-6817-5p
Nearest miRNA
hsa-mir-12136/Upstream/2130211; hsa-mir-101-1/Downstream/306395;
Nearest TSS
ENST00000473358/Upstream/34068; ENST00000442636/Downstream/30734;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/135828, chr1-CpG: 69/Downstream/142839
Nearest cancer related gene
RERE(OG, No orient, 0)
Upstream sequence
TTTTGTCTCCAAGAAAACTTAGTTTCTTCCCTCGGCAGGATAATAAAAAGCAGGACCAGGATAAGATTACTCATTATAGAAAAAATATATATAAACCAGG
Downstream sequence
GGAAGAAGCAGCACCTGTTTGGCAGTGCTTGGGGATGCATTCAGTTAAAATACGCTGTCTATAATAaggacttgctcaacctcagcactactgacatttg
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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