Basic Information
VIS ID
TVIS30005097
Fusion event
HIV-PRDM2 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
p36.21
Reference genome
GRCh37/hg19
Start
14073838/13747343 (Hg38)
End
14073838/13747343 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
PRDM2
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-541-5p ; hsa-mir-7154-5p ; hsa-mir-203b-3p ; hsa-mir-6854-5p ; hsa-mir-488-3p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-8065 ; hsa-mir-3656 ; hsa-mir-6730-5p ; hsa-mir-5681a ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-4668-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-605-5p ; hsa-mir-4668-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-12136/Upstream/1168320; hsa-mir-101-1/Downstream/3111606;
Nearest TSS
ENST00000473358/Upstream/8558; ENST00000491815/Downstream/2060;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/46638, chr1-CpG: 116/Downstream/1429
Nearest cancer related gene
PRDM2(TSG, No orient, 0)
Upstream sequence
TTGGTTTGAAGACTTTTCATATTTCTGAGAACTCTAGTCATTTCAAATATTAGTTGATACCACTTCAATATGTGACTTATAACAAAAAAATAGAGAAAGT
Downstream sequence
ATACATTTGGAATTTACACAATCTAGAAACAGTTTACTTTAACATAAGCCTGTTCTTTCAACAGATTAGTTCATCAGAATGCCAAAAGGCGTTCTTGATG
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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