Basic Information
VIS ID
TVIS30011859
Fusion event
HIV-CHAMP1 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
q34
Reference genome
GRCh37/hg19
Start
115089550/114324075 (Hg38)
End
115089550/114324075 (Hg38)
Orient
-
Location type
Exonic
Target gene
CHAMP1
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-1-3p ; hsa-mir-7-5p ; hsa-mir-101-3p ; hsa-mir-877-5p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-1267/Upstream/50167;
Nearest TSS
ENST00000623511/Upstream/1875; ENST00000446989/Downstream/9873;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/9185, None/Downstream
Upstream sequence
ATGCTGGTGGGCTAGGCAAAATGATATTTTACCAGAAAAGTGCAAAGTTATTTCACTGCCATAAATGCTTCTTCACCAGCAAGATGTACTCTAATGTATA
Downstream sequence
CTATCACATCACATCCAAACATGCATCCCCAGACAAATGGAATGATAAACCAAAAAATCAGTTGAACAAAGAAACAGATCCTGTGAAAAGCCCTCCTCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate