Basic Information
VIS ID
TVIS30004009
Fusion event
HIV-AGFG2 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
q22.1
Reference genome
GRCh37/hg19
Start
100141482/100543859 (Hg38)
End
100141482/100543859 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
AGFG2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-324-3p ; hsa-let-7b-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p
Nearest miRNA
hsa-mir-10525/Upstream/187138; hsa-mir-10399/Downstream/324177;
Nearest TSS
ENST00000635602/Upstream/4634; ENST00000429987/Downstream/6567;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/4267, chr7-CpG: 98/Downstream/25654
Upstream sequence
ACAGCGTTGGTGTGAGGGGTTGAGAGAAAGGCTGCTAGTTTCTGCTGTTCCTAAATTTACATACATACTGCCACAATTGTAGGTCCCACACCTGACCTAG
Downstream sequence
TTTTATTCATTTGGTTTTCTTCCAGTACCTAATTTCCTTAACCTAGATGTGGATCTGTTTAATTTCCCCAACATACACATATGCTTGTTTGTTTAGTTAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate