Basic Information
VIS ID
TVIS30004683
Fusion event
HIV-GAREM1 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
chr18
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
29992089/32412126 (Hg38)
End
29992089/32412126 (Hg38)
Orient
-
Location type
Intronic
Target gene
GAREM1
miRNAs that regulate target gene
hsa-mir-186-5p ; hsa-mir-29a-5p
Nearest miRNA
hsa-mir-1-2/Upstream/2113166; hsa-mir-122/Downstream/3179611;
Nearest TSS
ENST00000575820/Upstream/80456; ENST00000573479/Downstream/56;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/318775, chr18-CpG: 131/Downstream/58026
Upstream sequence
CAATTAGTCACAAACACAGTCCTCGAGTTTTTTGCCCATACACATGAGTATTTGTCTAAAACATGTCTTCTTTGTAGCAGCTAGGCCCTGCCACCACTGT
Downstream sequence
GCTTGGCTGAGTTCACAAATCTGTTGTAACCTGTGGCTTCCCTGTCACTTCTCTGGCTCTCCTCTCCTGCTAAGCTTTGTTTCCTAATTAAAATCTTCTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate