Basic Information
VIS ID
TVIS30013757
Fusion event
HIV-FAM102A 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
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
130724700/127962421 (Hg38)
End
130724700/127962421 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM102A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-122-5p ; hsa-mir-1-3p ; hsa-mir-296-3p ; hsa-mir-320a ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-1255a ; hsa-mir-1255b-5p ; hsa-mir-1273f ; hsa-mir-143-3p ; hsa-mir-2467-3p ; hsa-mir-3612 ; hsa-mir-3622b-5p ; hsa-mir-4257 ; hsa-mir-4695-5p ; hsa-mir-4708-5p ; hsa-mir-4770 ; hsa-mir-490-5p ; hsa-mir-576-3p ; hsa-mir-6088 ; hsa-mir-650 ; hsa-mir-6722-5p ; hsa-mir-6744-5p ; hsa-mir-7854-3p
Nearest miRNA
hsa-let-7a-1/Upstream/92926; hsa-mir-12126/Downstream/282300;
Nearest TSS
ENST00000422679/Upstream/11699; ENST00000472769/Downstream/1324;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/16844, chr9-CpG: 122/Downstream/17815
Upstream sequence
GATGAAGATGGGCATGGTGCCCCTTTTTTCCTTTGTCTTGAACAGAAAGTATCCATTGTGAGCATTTCTTAAAGCACACCTGACCAAAGGAAACCCAATC
Downstream sequence
CCCGGCAGTCCTGGGGACTGCATTGTGGCCCAGGGTGGAAATGCAACTCTGCAGAACGACCCCACCCCAGCACTATGAGACCCTGGAGGGAGGGCCCAGG
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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