Basic Information
VIS ID
TVIS30005343
Fusion event
HIV-NBPF20 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
q21.1
Reference genome
GRCh37/hg19
Start
145212377/146225786 (Hg38)
End
145212377/146225786 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
NBPF20
Nearest miRNA
hsa-mir-101-1/Upstream/375141; hsa-mir-1182/Downstream/2108693;
Nearest TSS
ENST00000473358/Upstream/12215; ENST00000622359/Downstream/3214;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/173203, chr1-CpG: 98/Downstream/2303
Upstream sequence
TGCCCACAAAATTTGCATTGATCTAGTTCCCACTCTGTGTTGCCATTCCTAGTGATCCTCCTCCCTACCTCTCCCATTATGGTAGAAAAAAACTCTGTGT
Downstream sequence
CCTGGCTACATCAAAATCTGTTGGGGTGGATcttggactcagcacccagggattctgataaggtaagtttgagaatccatattttttcaaggtttacagg
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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