Basic Information
VIS ID
TVIS30010379
Fusion event
HIV-LRRC28 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
q26.3
Reference genome
GRCh37/hg19
Start
99894346/99354141 (Hg38)
End
99894346/99354141 (Hg38)
Orient
-
Location type
Intronic
Target gene
LRRC28
miRNAs that regulate target gene
hsa-mir-34a-5p
Nearest miRNA
hsa-mir-10393/Upstream/569639; hsa-mir-1302-10/Downstream/2606318;
Nearest TSS
ENST00000557528/Upstream/20058; ENST00000560483/Downstream/6855;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/102304, chr15-CpG: 154/Downstream/211022
Upstream sequence
ATAGAGAAATAAAATTATTAACAGGATAGTATCAAACAACCAGTTTTCTAATAGTAGTATTGAGGTAATAAGCAGTCCTACTTACAAATGGCCTATAATC
Downstream sequence
TAAAGGCATTTTTAGCCTGTTGGTTTAAATCAAAACTCGAAATGCTTTCTTCATAGAAACAGCTCTGGCCACTGTATTCCTAAGCAAACTCATTAAAGAG
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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