Basic Information
VIS ID
TVIS30008415
Fusion event
HIV-GAP43 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
q13.31
Reference genome
GRCh37/hg19
Start
115428902/115710055 (Hg38)
End
115428902/115710055 (Hg38)
Orient
-
Location type
Intronic
Target gene
GAP43
miRNAs that regulate target gene
hsa-mir-3614-5p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-890 ; hsa-mir-363-3p
Nearest miRNA
hsa-let-7g/Upstream/966530; hsa-mir-12124/Downstream/1140222;
Nearest TSS
ENST00000440867/Upstream/86545; ENST00000490351/Downstream/132442;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/51115, chr3-CpG: 72/Downstream/73823
Upstream sequence
ccctaaacctctgcttattagacagttaggttcaaggagcttaataaTAGTATATTGCACAGTATCCAACAGATAgtttctctcaaatttcaaaatatat
Downstream sequence
attggcactcctgtgagttcactgtagcacccacggattcatgtgtatggtttgagaactacAATTTAAAGTGCTGATTCACTATAATGTGCCAAGCAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate