Basic Information
VIS ID
TVIS30009059
Fusion event
HIV-RNF8 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
chr6
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
37343857/37376081 (Hg38)
End
37343857/37376081 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
RNF8
miRNAs that regulate target gene
hsa-mir-4310 ; hsa-mir-7157-5p ; hsa-mir-1303 ; hsa-mir-7977 ; hsa-mir-6866-5p ; hsa-mir-877-5p ; hsa-mir-338-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-6817-3p ; hsa-mir-942-5p ; hsa-mir-7110-3p ; hsa-mir-520f-5p ; hsa-mir-4509 ; hsa-mir-4744 ; hsa-mir-141-5p
Nearest miRNA
hsa-mir-1236/Upstream/753569; hsa-mir-10398/Downstream/179284;
Nearest TSS
ENST00000381078/Upstream/7205; ENST00000471097/Downstream/57138;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/21215, chr6-CpG: 30/Downstream/123538
Nearest cancer related gene
RNF8(TSG, No orient, 0)
Upstream sequence
GGGAAGTGGCAGGTATCATAGAGCATGGAGCCTGAAGGTAATTCAAGAGGCCTGTCTCCAGCCTTCTGCCTCCAGAGGTGTACCTTACTTTACAGAAAAG
Downstream sequence
GCAGCTGCAAAGAACACAGCAACTTTATAACTAATTCAAGTTTCCTGCCTCTGGACTATTCATGCCTCTTTTCTTGTCCAGTGAGTTTTTAATTGTTTGG
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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