Basic Information
VIS ID
TVIS30009351
Fusion event
HIV-RUNDC3B 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
chr7
Cytoband
q21.12
Reference genome
GRCh37/hg19
Start
87430030/87800715 (Hg38)
End
87430030/87800715 (Hg38)
Orient
+
Location type
Intronic
Target gene
RUNDC3B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-93-3p ; hsa-mir-221-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-29b-3p ; hsa-mir-99a-5p ; hsa-mir-33a-5p ; hsa-mir-16-5p ; hsa-mir-3124-3p ; hsa-mir-629-3p ; hsa-mir-587 ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-4287 ; hsa-mir-4685-3p ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-5088-3p ; hsa-mir-186-3p ; hsa-mir-483-3p ; hsa-mir-561-3p ; hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-4252 ; hsa-mir-4660 ; hsa-mir-129-5p ; hsa-mir-4766-5p ; hsa-mir-5009-3p ; hsa-mir-510-3p
Nearest miRNA
hsa-mir-10525/Upstream/11885446; hsa-mir-10399/Downstream/4403300;
Nearest TSS
ENST00000635602/Upstream/87392; ENST00000495067/Downstream/36432;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/171587, chr7-CpG: 108/Downstream/75070
Upstream sequence
tagaaacatcctcatttctccacTCATCttttcttttcttttttttttttttttgagacagggcctctgtcatccaggctggagtgcagtggcacaatca
Downstream sequence
cagctcactgcagccttgacctccaggcttaagtgatcctaccacctcagcctttcaagtagctaggactacaagcatgtaccaccttgctcagctaatt
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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