Basic Information
VIS ID
TVIS30015949
Fusion event
HIV-SAMSN1 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr21
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
15899422/14527101 (Hg38)
End
15899638/14527101 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA21A
Target gene
SAMSN1
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-124-3p ; hsa-mir-7-5p
Nearest miRNA
hsa-mir-10396a/Upstream/802827; hsa-let-7c/Downstream/2011988;
Nearest TSS
ENST00000624081/Upstream/26495; ENST00000449214/Downstream/19212;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/143336, chr21-CpG: 171/Downstream/537074
Upstream sequence
TGGAAAAGTTTCACAGTCTATTTCAAAGAAAAGATTTGCATTTGTGAGGCACACATCTGCAGTACTTTGAAATATACTGGCAAATTAAAAATTACACACA
Downstream sequence
AACAAATTTAACTCTCTTAAAATAATCAGTTAGAATTGCCTCAGTGTCACGTGGTACCAGTGGAATACACTTCTGTGGGGTGTCAGGAAACTGACGGCTA
Target sequence
CTCTCCCAACAAGTTCTCAGCTCTTTTAAATATTGCACAAAGAACGTTGGTTAGTAATGTACTCAAAGATCAGAATTCTGTTTCAGCACATCCTTATATGAATATTCTACTATAATAAAAGCTGAATCTCAATAAGCTTGTCAGCCTTTATCCAAAGACACTCGAGGATTTAATTGTTCTAACTAACTCGGGTACTCAGATCTTTTGAAGAGGTGA
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate