Basic Information
VIS ID
TVIS30013388
Fusion event
HIV-HLA-E 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
chr6
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
30460475/30492698 (Hg38)
End
30460475/30492698 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
HLA-E
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-92a-3p ; hsa-mir-218-5p ; hsa-mir-455-3p ; hsa-mir-143-5p ; hsa-mir-6879-3p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6773-3p ; hsa-mir-339-5p ; hsa-mir-3620-3p ; hsa-mir-500b-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6770-5p ; hsa-mir-6126 ; hsa-mir-4493 ; hsa-mir-605-3p ; hsa-mir-5582-5p ; hsa-mir-124-3p
Nearest miRNA
hsa-mir-3143/Upstream/3345010; hsa-mir-10398/Downstream/91634;
Nearest TSS
ENST00000381078/Upstream/3186; ENST00000415195/Downstream/23568;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/2300, chr6-CpG: 20/Downstream/62811
Upstream sequence
TCTGAAGTGGGTGGAGGGTGGGGCAGAGGGGACAGGACTGGGTTGTGGGGATTTTTTGATTCAGAATTTTTGAGTGTGTGGTGGGCTGTTCAGAGTGTCA
Downstream sequence
TCACTTACCGTGACTGACCTGAATTTGTTCATGACTATTTTCTTCTGTAGCCTGAGACAGCTGCCTTGTGTGCGACTGAGATGCACAGCTGCCTTGTGTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate