Basic Information
VIS ID
TVIS30006666
Fusion event
HIV-HMG20A 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
chr15
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
77755503/77463161 (Hg38)
End
77755503/77463161 (Hg38)
Orient
+
Location type
Intronic
Target gene
HMG20A
miRNAs that regulate target gene
hsa-mir-30c-5p ; hsa-mir-20a-5p
Nearest miRNA
hsa-mir-10393/Upstream/1700846; hsa-mir-11181/Downstream/1746627;
Nearest TSS
ENST00000557528/Upstream/4944; ENST00000558845/Downstream/14962;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/43016, chr15-CpG: 128/Downstream/150847
Upstream sequence
acacctagccattctgcctcttaagtatctcttaactgtccttctgctcagaatcctgcctgcctttgtgtctcacttaatctattacagtaacctcttg
Downstream sequence
atagtctccctttctccTTTTATACCAAGTTCTTTCTATCTGGAATCGTGTTGTTTACCTTGATGAATACGTACTCATCTTTTAGGACCTCCTCTATAAA
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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