Basic Information
VIS ID
TVIS30012022
Fusion event
HIV-TMED3 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
q25.1
Reference genome
GRCh37/hg19
Start
79607568/79315226 (Hg38)
End
79607568/79315226 (Hg38)
Orient
-
Location type
Intronic
Target gene
TMED3
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-4795-3p ; hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-4662a-5p ; hsa-mir-449b-3p
Nearest miRNA
hsa-mir-10393/Upstream/105355; hsa-mir-11181/Downstream/1265877;
Nearest TSS
ENST00000557528/Upstream/4067; ENST00000558562/Downstream/705;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/3475, chr15-CpG: 165/Downstream/116531
Upstream sequence
GGCTCTGGGCACACTCACGAGTGCCTGTGGATTCATTTGCCCAGTCTTCCACCTTCCCTAAGCAGTTGGAGGCTAGAGctgcactgttcagtacagtagc
Downstream sequence
cagtgtctaaatttggctatttaaattaattaaaattaaattaaaaattcacttcctcatctgcaccatagcaatactccaggtactcaatagtcacagg
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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