Basic Information
VIS ID
TVIS30001623
Fusion event
HIV-NBPF8 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
chr1
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
147926505/148454384 (Hg38)
End
147926505/148454384 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
NBPF8
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-4716-5p ; hsa-mir-4709-5p ; hsa-mir-1273h-3p ; hsa-mir-4771 ; hsa-mir-3166 ; hsa-mir-499b-5p
Nearest miRNA
hsa-mir-101-1/Upstream/66021; hsa-mir-1182/Downstream/2037961;
Nearest TSS
ENST00000473358/Upstream/95698; ENST00000322209/Downstream/29295;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/51691, chr1-CpG: 125/Downstream/4412
Upstream sequence
TTGGGGACCCTGAAGTGTTTGAGTATCTTCTCCACATCTGGTCATTTAGGCTAAGAAATTCCTTCTTGTCTACCAGGTCTTTTAGCATTCATTGTGTAAG
Downstream sequence
tcattcaacacctacttactgagaaggaatactgggctagacagtgtgctagggcctggggaaaccgcaatgcataggagagaattcccatctccaagag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate