Basic Information
VIS ID
TVIS30011159
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
8874035/8813976 (Hg38)
End
8874035/8813976 (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/2384080; hsa-mir-101-1/Downstream/52526;
Nearest TSS
ENST00000473358/Upstream/6925; ENST00000442636/Downstream/3489;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/110455, chr1-CpG: 100/Downstream/2977
Nearest cancer related gene
RERE(OG, No orient, 0)
Upstream sequence
agtgctgggattacaggcgtgagccaccgcactaggccTTACTGTCCTATTTTTTAAAAGCTTTTTCGACTGACCAGTAAATCAAAGTTGAAAAGGTAAC
Downstream sequence
TGGTACATTTTATTTCTTGATTTGGATTACCTTTTTGTTGTGAATTGGTTCTCAGTTCTAGTTTCCTTGTGACAAAACACTGATGGAGAATATATTGAAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate