Basic Information
VIS ID
TVIS30010613
Fusion event
HIV-ZNF224 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
q13.31
Reference genome
GRCh37/hg19
Start
44603191/44099038 (Hg38)
End
44603191/44099038 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZNF224
miRNAs that regulate target gene
hsa-mir-505-5p ; hsa-mir-671-5p ; hsa-mir-4786-3p ; hsa-mir-4480 ; hsa-mir-665 ; hsa-mir-95-5p ; hsa-mir-3163 ; hsa-mir-454-3p ; hsa-mir-3666 ; hsa-mir-4295 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-7850-5p ; hsa-mir-4529-3p ; hsa-mir-4520-2-3p ; hsa-mir-4520-3p ; hsa-mir-3913-3p ; hsa-mir-6512-5p ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10395/Upstream/1747833; hsa-let-7e/Downstream/554648;
Nearest TSS
ENST00000633603/Upstream/1329; ENST00000591551/Downstream/6295;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/4337, chr19-CpG: 33/Downstream/14299
Upstream sequence
TCATTTACTCCTCAGAACAGCTGAATGAGGCTGTTCTTATCTTCCTCTTAAACACATGAAATATGAGAAACCTGCTCAGGTTCAGACAGGAGACCAAGGG
Downstream sequence
TCCAGAATATTAGTTATTTTAGCCTTTTTACTCAGTTGAAAGAGAGAGAAAAAGAAAGAGAGAATTCTCCATTGAGGGAACTGTGCCCTGTGGTGTGGGT
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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