Basic Information
VIS ID
TVIS30004381
Fusion event
HIV-EPC1 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
chr10
Cytoband
p11.22
Reference genome
GRCh37/hg19
Start
32582901/32293973 (Hg38)
End
32582901/32293973 (Hg38)
Orient
-
Location type
Intronic
Target gene
EPC1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-103a-3p ; hsa-mir-19b-3p ; hsa-mir-16-5p ; hsa-mir-218-5p ; hsa-mir-129-5p ; hsa-mir-4282 ; hsa-mir-532-5p ; hsa-mir-3686 ; hsa-mir-4742-3p ; hsa-mir-4778-5p
Nearest miRNA
hsa-mir-1265/Upstream/1925308; hsa-mir-107/Downstream/2785625;
Nearest TSS
ENST00000439456/Upstream/6995; ENST00000412085/Downstream/52526;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/183805, chr10-CpG: 164/Downstream/52316
Upstream sequence
AAACAATCTAAGCTTAGATTTGTCTTACACATTTAAAGTTAAAGAAAGGAGATTATCTTTACTATGAATATACATATAAGTAATAAAAGACAATGGATGC
Downstream sequence
GACACCCTCCAACCACTCCTAAAAGCAAATACACTAGAAGCCTATTAAGAACATAAAGCGATCATTAAAACTTATTTggttgaaccatgtgaagtgccat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate