Basic Information
VIS ID
TVIS30005261
Fusion event
HIV-DEPDC1-AS1 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
chr1
Cytoband
p31.2
Reference genome
GRCh37/hg19
Start
68985881/68520198 (Hg38)
End
68985881/68520198 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA1L
Target gene
DEPDC1-AS1
Nearest miRNA
hsa-mir-101-1/Upstream/336588; hsa-mir-11399/Downstream/2547433;
Nearest TSS
ENST00000473358/Upstream/22977; ENST00000646352/Downstream/113503;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/22875, chr1-CpG: 131/Downstream/1047086
Upstream sequence
gtgagatttcatcatgctactcagaaccacacatgttttaaaagttgtgtattgtttcttctggtatttctatttaatatttcagattgcagttgaccat
Downstream sequence
gggtaagcaaaaccttgcataaggggggacGATgataatttctattgttctatcttcagtagtttttttttttgtcctctctattctgctactgagccca
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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