Basic Information
VIS ID
TVIS30005226
Fusion event
HIV-EFCAB14-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
p33
Reference genome
GRCh37/hg19
Start
47145741/46680069 (Hg38)
End
47145741/46680069 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
EFCAB14-AS1
Nearest miRNA
hsa-mir-12136/Upstream/2134517; hsa-mir-101-1/Downstream/4379768;
Nearest TSS
ENST00000473358/Upstream/5941; ENST00000413093/Downstream/4495;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11346, chr1-CpG: 64/Downstream/38661
Upstream sequence
AAGCAGCTCAAGAACCAGTGACtcaaaagtgtaatgagataccatgtcataatcactacgatggctataataaaaaaagacaggccttaccaagcattag
Downstream sequence
ggaggatgtggagaaagtggattgaaccctcacacattgctgatgggaatgtaacatggtacagccactctggaaaagtgtaggagttcctcaaaaagtt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate