Basic Information
VIS ID
TVIS30004120
Fusion event
HIV-RNF19A 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
chr8
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
101280745/100268517 (Hg38)
End
101280745/100268517 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF19A
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-33a-5p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-12123/Upstream/731656; hsa-mir-10400/Downstream/114246;
Nearest TSS
ENST00000518652/Upstream/3937; ENST00000519566/Downstream/403;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/54866, chr8-CpG: 134/Downstream/40823
Upstream sequence
ATGTGTTATTTAGCTATTAACTTTCATTAAAAAGATCTCATAGACCTGACCTTACAAGGATATACCTATGAGAAAAATCTCAGGTGTGTATCCTTCAATA
Downstream sequence
TTTTATACTCAAAGTTTTATAATACAAACATACTAAAATTTTCAGATTCAGAACATTTTAAAGCAAGTCTGCTTTATACGTATTTATATATGCTTGCCAA
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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