Basic Information
VIS ID
TVIS30003303
Fusion event
HIV-ZMYND8 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
chr20
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
45974490/47345746 (Hg38)
End
45974490/47345746 (Hg38)
Orient
+
Location type
Intronic
Target gene
ZMYND8
miRNAs that regulate target gene
hsa-mir-548d-5p ; hsa-mir-421 ; hsa-mir-92a-3p ; hsa-mir-18a-5p ; hsa-mir-142-3p ; hsa-mir-3140-3p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/178688; hsa-mir-1-1/Downstream/2518113;
Nearest TSS
ENST00000382410/Upstream/26685; ENST00000413818/Downstream/2326;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/106379, chr20-CpG: 56/Downstream/155938
Upstream sequence
ataggcacatgctgccacgcccagataatttttttgtattttagtagagatggggtttcaccgtgttgcccaggctggtctcgaactcctgagctcagac
Downstream sequence
aatccacccgcctcgccctcccaaagtgctaagattacaggcgtgagccaacgcactcTGTCCACttttttttttttaatagagatgggggcgggagggg
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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