Basic Information
VIS ID
TVIS30008253
Fusion event
HIV-RAD18 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
chr3
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
8992632/8950948 (Hg38)
End
8992632/8950948 (Hg38)
Orient
+
Location type
Intronic
Target gene
RAD18
miRNAs that regulate target gene
hsa-mir-618 ; hsa-mir-4424 ; hsa-mir-1304-5p ; hsa-mir-6734-5p ; hsa-mir-1226-5p ; hsa-mir-6834-5p ; hsa-mir-4689 ; hsa-mir-6858-5p ; hsa-mir-4650-3p ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-6738-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-423-5p ; hsa-mir-3184-5p ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-4714-5p ; hsa-mir-4470 ; hsa-mir-3128 ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-6779-3p ; hsa-mir-5583-5p ; hsa-mir-3129-3p
Nearest miRNA
hsa-mir-4790/Upstream/3700693; hsa-let-7g/Downstream/1329403;
Nearest TSS
ENST00000440867/Upstream/38479; ENST00000414633/Downstream/12483;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/181354, chr3-CpG: 39/Downstream/12232
Upstream sequence
ctagcgataaaaagaaccgctataacagaatgcctttgataggttcattaatagattgaacacggctgaggaatctctgagctttaggacatgtcaatgg
Downstream sequence
aaacctccaaaactgaaaagcaaagagaaaaaaagacaggaaaaatggaatagaataaccaagaactgcaggatgactacaaaagatgtaacatacacat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate