Basic Information
VIS ID
TVIS30002171
Fusion event
HIV-GPC6-AS2 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
chr13
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
94491915/93839662 (Hg38)
End
94491915/93839662 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
GPC6-AS2
Nearest miRNA
hsa-mir-1297/Upstream/1349442; hsa-mir-1267/Downstream/2587567;
Nearest TSS
ENST00000623511/Upstream/3518; ENST00000617456/Downstream/348329;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/611038, chr13-CpG: 59/Downstream/709644
Upstream sequence
CGTTTACACTGCTGTGTAAACTTTGCACAGCAGTCACATCGTCATCACTTACACATGTACAAGTGAGGAGGGTAGGCAAGGTATGTGATACCATGGGCCC
Downstream sequence
AACTTGAAAGTTTGGAGGATTTCTCTTTTATTGTCCCGTCTTCAGAGATTCAATGTTATGAGGATGTTCCCTGGTGCAATATCAGCGCACTATAGAGGTT
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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