Basic Information
VIS ID
TVIS30013410
Fusion event
HIV-HLA-DMA 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
p21.32
Reference genome
GRCh37/hg19
Start
32920131/32952354 (Hg38)
End
32920131/32952354 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
HLA-DMA
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1236/Upstream/202375; hsa-mir-10398/Downstream/255481;
Nearest TSS
ENST00000381078/Upstream/2683; ENST00000584808/Downstream/107;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/57346, chr6-CpG: 75/Downstream/15765
Upstream sequence
CCCCAGACACAAATGGTAAATTGGAAAACCTGTATCCAGACATTTCTTCAGCCACTTCATTGGCACCAAGCGTCTCTCAAAATGTCTTCTGTTCCTTAAC
Downstream sequence
CTACCAGGCCTCCCAAAGACAGCAATGGGAGAAGTGACCCCATAACTGCATAAAATAATCCCTCTTCTTTGAAGCTCTTGGCAGGAATCGCTCAGCCAGC
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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