Basic Information
VIS ID
TVIS30007506
Fusion event
HIV-ZNF780A 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
chr19
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
40584782/40078875 (Hg38)
End
40584782/40078875 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZNF780A
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-let-7a-5p ; hsa-mir-302c-5p ; hsa-mir-3143 ; hsa-mir-433-3p ; hsa-mir-3941 ; hsa-mir-219b-5p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-5692a ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-4275 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-548g-3p ; hsa-mir-552-5p ; hsa-mir-6854-3p ; hsa-mir-590-3p ; hsa-mir-1229-3p ; hsa-mir-6862-3p ; hsa-mir-6784-3p ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-513b-5p ; hsa-mir-6758-3p ; hsa-mir-342-3p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-8087
Nearest miRNA
hsa-mir-10395/Upstream/249073; hsa-let-7e/Downstream/203668;
Nearest TSS
ENST00000633603/Upstream/22666; ENST00000598952/Downstream/11360;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/22632, chr19-CpG: 26/Downstream/11758
Upstream sequence
acctagaagtgaaagaatatctgccattgtgaaaacacacaaaattataaaacccactgacacagcaaacacaaataagcagaaagaacccaaatgttac
Downstream sequence
ccctatagaaaacaaccaaaccacaatgatgaaaaataaaagagaaagaaaggaacaaaggatacacaaatcaactagaaatcaattaataaaatgacaa
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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