Basic Information
VIS ID
TVIS30003323
Fusion event
HIV-GMEB2 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
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
62226713/63595360 (Hg38)
End
62226713/63595360 (Hg38)
Orient
+
Location type
Intronic
Target gene
GMEB2
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-101-3p ; hsa-mir-19b-3p ; hsa-mir-877-3p ; hsa-mir-328-3p ; hsa-mir-1237-5p ; hsa-mir-1250-5p ; hsa-mir-1286 ; hsa-mir-214-3p ; hsa-mir-2355-5p ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-3196 ; hsa-mir-3529-3p ; hsa-mir-3619-5p ; hsa-mir-3661 ; hsa-mir-4254 ; hsa-mir-4286 ; hsa-mir-4488 ; hsa-mir-4530 ; hsa-mir-4697-5p ; hsa-mir-4746-3p ; hsa-mir-492 ; hsa-mir-549a ; hsa-mir-6165 ; hsa-mir-619-3p ; hsa-mir-628-5p ; hsa-mir-631 ; hsa-mir-6734-3p ; hsa-mir-6816-5p ; hsa-mir-6858-3p ; hsa-mir-6894-5p ; hsa-mir-7154-3p ; hsa-mir-761 ; hsa-mir-765 ; hsa-mir-766-5p
Nearest miRNA
hsa-mir-1-1/Upstream/308494; hsa-mir-1914/Downstream/324089;
Nearest TSS
ENST00000382410/Upstream/21121; ENST00000411579/Downstream/9542;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/3108, chr20-CpG: 167/Downstream/30876
Upstream sequence
ATTTGGGGCTGGGCCGTGGGGGTGGGAGGGAGGGGGCCGGGTGGGCGCCCAGGCACTCTCTGTTACTCGCTATACCCTTCCCCACACGTGAGTTATTATA
Downstream sequence
TTACAACCAAAATGGCTTAAAAAGAAAAGTGCTTCAATCTTCCTTGTCAATGAAAGCAGCAATTCTGCCAGATCTCCTCTGTGAGGCAGGAGGAGGCTGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate