Basic Information
VIS ID
TVIS30006273
Fusion event
HIV-RNF34 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
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
121846313/121408510 (Hg38)
End
121846313/121408510 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
RNF34
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-93-5p ; hsa-mir-30b-5p ; hsa-mir-30c-5p ; hsa-mir-619-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6778-3p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6504-3p ; hsa-mir-3159 ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p
Nearest miRNA
hsa-let-7i/Upstream/685244; hsa-mir-3612/Downstream/35763;
Nearest TSS
ENST00000382841/Upstream/8363; ENST00000557402/Downstream/945;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/7917, chr12-CpG: 57/Downstream/33740
Upstream sequence
cagcctgggtaacaagagtgaaactctgtctaaaaaataaaaataaaaataaaaataaaTAAAAACTAGAAAATGTGTACAGATTTAAGAGGGGAAAGAT
Downstream sequence
CAGTATAGGACACTTCAAGCACTGTTAGGTGAGTGTCAAGGTGACAGTTGTAGGTAGAGATGCCTTTGCCCTGAGGAGGCATGCAGAATAAATTTCTGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate