Basic Information
VIS ID
TVIS30002262
Fusion event
HIV-RIN3 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
chr14
Cytoband
q32.12
Reference genome
GRCh37/hg19
Start
93038158/92571813 (Hg38)
End
93038158/92571813 (Hg38)
Orient
+
Location type
Intronic
Target gene
RIN3
miRNAs that regulate target gene
hsa-mir-6734-5p ; hsa-mir-4710 ; hsa-mir-6825-5p ; hsa-mir-6738-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-423-5p ; hsa-mir-3184-5p
Nearest miRNA
hsa-mir-1260a/Upstream/15305523; hsa-mir-1185-1/Downstream/1376413;
Nearest TSS
ENST00000550708/Upstream/15973; ENST00000555908/Downstream/4421;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/56929, chr14-CpG: 15/Downstream/68101
Upstream sequence
atgatctccattcaggtttgataatccgataggacaactcaaagactcacaaagtgttatacttccaattacagttttgtataaaagatacagcacagga
Downstream sequence
accaccaaatggaaaaggcacatagggcgaggtctggggcggggcagccacagagtccccatcacctctccTCCTATTCGCAGggggagtccagatgggt
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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