Basic Information
VIS ID
TVIS30010508
Fusion event
HIV-RNF43 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
chr17
Cytoband
q22
Reference genome
GRCh37/hg19
Start
56490847/58413486 (Hg38)
End
56490847/58413486 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF43
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-550a-5p
Nearest miRNA
hsa-mir-10226/Upstream/77464; hsa-mir-1250/Downstream/724272;
Nearest TSS
ENST00000595228/Upstream/10765; ENST00000580769/Downstream/2155;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/60941, chr17-CpG: 117/Downstream/74007
Nearest cancer related gene
RNF43(OG, No orient, 0)
Upstream sequence
CAGAAATGAATACTAAGCTAGTGAAAAAACTTATTTAAAGACCTAAACGAAGCATATGTGGACAGAAAGGAGATGACTAAAAATTGCCAATGACATAAAA
Downstream sequence
CTATCCACTGTAAAGGCTGAAAGTCTTTGCTAAGTTATGATGAAATTCCCTCTTCACAAAGTAAAAGCAATACTTAATGTATAATGATAGGATCAAAGTT
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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