Basic Information
VIS ID
TVIS30013193
Fusion event
HIV-FAM193A 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
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
2566763/2565036 (Hg38)
End
2566763/2565036 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM193A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6090 ; hsa-mir-182-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-760 ; hsa-mir-6809-5p ; hsa-mir-31-5p ; hsa-mir-7155-5p ; hsa-mir-637 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-6741-3p ; hsa-mir-212-5p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-29a-3p ; hsa-mir-6856-3p
Nearest miRNA
hsa-mir-4800/Upstream/314880; hsa-mir-12113/Downstream/3358239;
Nearest TSS
ENST00000502981/Upstream/28405; ENST00000506904/Downstream/60396;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/27342, chr4-CpG: 28/Downstream/166894
Nearby gene
RNF4(No orient, 49177)
Upstream sequence
tacagtcacatgccaccatgcctggttaattaaaaagaaattgcagagccaggggtcttgctgtgttacccaggctggtcttgaactcctggcctcaagt
Downstream sequence
tatcctcccaccatggcctcccaaagtactgggggagtataggagtgagccactgcacctggctacgtgggtatttttataggtgttagcctgttttttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate