Basic Information
VIS ID
TVIS30007886
Fusion event
HIV-PARD3B 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
chr2
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
205761848/204897125 (Hg38)
End
205761848/204897125 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
PARD3B
miRNAs that regulate target gene
hsa-mir-6873-3p ; hsa-mir-3941 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6758-3p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-3180-5p ; hsa-mir-4642 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-891a-3p ; hsa-mir-3688-5p ; hsa-mir-4267
Nearest miRNA
hsa-mir-10b/Upstream/15764014; hsa-mir-1244-1/Downstream/1886109;
Nearest TSS
ENST00000437798/Upstream/351125; ENST00000489565/Downstream/68027;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/350938, chr2-CpG: 91/Downstream/784754
Upstream sequence
TTCTTATTGACTTGTGTACAATAATACCATAGATATTCTTATTTTAAGTGTTTTTCCCTTATGTTGTTCATGGAAATATTTTTAACAAATTAATTTATAA
Downstream sequence
GGTCTTCACAAAATTATTTATAATTTAGCTATTAAATCCCTGGTTTCTATAAGGGCTTAGACATATCAGAATATTTTGATTTGTGAGGGACTGGTATACT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate