Basic Information
VIS ID
TVIS30004121
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
101307148/100294920 (Hg38)
End
101307148/100294920 (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/758059; hsa-mir-10400/Downstream/87843;
Nearest TSS
ENST00000518652/Upstream/19886; ENST00000519566/Downstream/8310;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/81269, chr8-CpG: 134/Downstream/14420
Upstream sequence
ctgcttactagactgcttttttaaaacgatcctttaaaagattttcttgcattattcaatacctggaactgtaaggtcttcaacgaatgactaaatgtgt
Downstream sequence
taaactttttgccttacttgctccaagtaacctgtataagtatTAATTCatttattctttcaacaaatatgttcagtgcctatcatgtgccagatactct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate