Basic Information
VIS ID
TVIS30000654
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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr21
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
15884097/14511776 (Hg38)
End
15884097/14511776 (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/787502; hsa-let-7c/Downstream/2027313;
Nearest TSS
ENST00000624081/Upstream/11170; ENST00000449214/Downstream/34537;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/128011, chr21-CpG: 171/Downstream/552399
Upstream sequence
TATAACAGTCTACATACAAAAAGTCATAAGGCACCCTGCAATATCAATCGTTTCATCCAAATATTGTAGCTGGAAATTTGACTAAATCCTGAGTGATTTC
Downstream sequence
CTTCTTAGAAAAAATATTAATCTTCATTAGAAAATCCTTGTTGGTTACTTTGGATCCCTTTTTGCCACCTAATTGGTCATAGTCCTACCATTTATTATTT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate