Basic Information
VIS ID
TVIS30012920
Fusion event
HIV-SAMSN1 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
chr21
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
15916526/14544205 (Hg38)
End
15916526/14544205 (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/819931; hsa-let-7c/Downstream/1994884;
Nearest TSS
ENST00000624081/Upstream/43599; ENST00000449214/Downstream/2108;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/160440, chr21-CpG: 171/Downstream/519970
Upstream sequence
gtggcacgaacacggcccactgtagccttcaatctcctggtctcaagcaatcttcctgcctcagcctcctgaatagctggtactacatgcacgtgccacc
Downstream sequence
atgcccaggtaatttttgaattttttgtagagatggggttttgccacattgcccagactgggctggaactcctgaactcaagtgatttacgcacctcggc
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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