Basic Information
VIS ID
TVIS30004851
Fusion event
HIV-DENND6B 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
chr22
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
50749354/50310925 (Hg38)
End
50749354/50310925 (Hg38)
Orient
+
Location type
Intronic
Target gene
DENND6B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6514-3p ; hsa-mir-3178 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-6499-5p ; hsa-mir-6850-3p ; hsa-mir-500a-5p ; hsa-mir-1247-3p ; hsa-mir-1827 ; hsa-mir-1910-3p ; hsa-mir-3612 ; hsa-mir-4252 ; hsa-mir-4327 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-5694 ; hsa-mir-6499-3p ; hsa-mir-650 ; hsa-mir-6511a-5p ; hsa-mir-6516-5p
Nearest miRNA
hsa-let-7a-3/Upstream/347986; hsa-mir-12114/Downstream/96517;
Nearest TSS
ENST00000624155/Upstream/3298; ENST00000453835/Downstream/3706;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/3232, chr22-CpG: 22/Downstream/5988
Nearby gene
DENND6B(No orient, 1038)
Upstream sequence
cccagctactcgggaggctgaggcaggagaatggcgtgaacccgggaggcagagcttgcagtgagccgagatcatgccactgcactccagcctgggcaac
Downstream sequence
agagcgagactccatttcaaaaagaaaaaaaaagaaaaaGTCCCTCCCCCAGCCCTGTGTCCCCTGGCCAGCACCCGCCCGGcctcacagggtacaaagc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate