Basic Information
VIS ID
TVIS30008399
Fusion event
HIV-ALCAM 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
chr3
Cytoband
q13.11
Reference genome
GRCh37/hg19
Start
105282465/105563621 (Hg38)
End
105282465/105563621 (Hg38)
Orient
-
Location type
Intronic
Target gene
ALCAM
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-215-5p ; hsa-mir-148b-3p ; hsa-mir-483-5p ; hsa-mir-323a-5p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-9-5p
Nearest miRNA
hsa-let-7g/Upstream/2039505; hsa-mir-12124/Downstream/4039207;
Nearest TSS
ENST00000440867/Upstream/13401; ENST00000473550/Downstream/110372;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/194126, chr3-CpG: 84/Downstream/304814
Upstream sequence
ttgaaattataaattcctctcagcactgttacctgtgttccacaaatatcggtatgttgtgttttcttattcattcagtgaatgtttccctgtggtttct
Downstream sequence
tccttgaagtcaagtgactagacctgtatgaaattccaagcatttctttttttttttttttttttttttttttttttgagacggagtctcgctctgtcgc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate