Basic Information
VIS ID
TVIS30003510
Fusion event
HIV-SHISA5 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
p21.31
Reference genome
GRCh37/hg19
Start
48537376/48499943 (Hg38)
End
48537376/48499943 (Hg38)
Orient
+
Location type
Intronic
Target gene
SHISA5
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-1296-5p ; hsa-mir-877-5p ; hsa-mir-92a-3p ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-12127/Upstream/183484; hsa-let-7g/Downstream/50018;
Nearest TSS
ENST00000440867/Upstream/20384; ENST00000421275/Downstream/4107;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/52766, chr3-CpG: 22/Downstream/3922
Upstream sequence
aacagaagtgagactccgtctcaaaaaaaaaaaaaaaaaaaaGCCAAAAGGTGAAGTGAAAGGGTGAAAGGGTAGAAGAAGACCTGTCaggaaccctcag
Downstream sequence
gcaggactgacaggtgtgcagccctgtgcaccactcccaagagcacctggaagtccttagtggataactgtgtgcatctatgacatggcaactccacaac
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate