Basic Information
VIS ID
TVIS30007982
Fusion event
HIV-CPNE1 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
chr20
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
34227711/35639789 (Hg38)
End
34227711/35639789 (Hg38)
Orient
-
Location type
Intronic
Target gene
CPNE1
miRNAs that regulate target gene
hsa-let-7d-5p ; hsa-mir-1229-3p ; hsa-mir-500a-5p ; hsa-mir-532-5p ; hsa-mir-378a-3p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/185692; hsa-mir-1-1/Downstream/2876774;
Nearest TSS
ENST00000382410/Upstream/7235; ENST00000397416/Downstream/13888;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/20030, chr20-CpG: 46/Downstream/24845
Upstream sequence
TGAATGACAAAAGCATTAGCAGTGATTATTTGGGGTGGTAAGATTACAGGCCACAACTGGAGCTGCTGTCTTCTCACTCCACGACTTCTCAAATGTCCCC
Downstream sequence
AAAAGAGATGCCCTTGGTCTGGGCCAAACACGTGTAGTGGGCTACTATTATCATCTTCCTGTGTAGGCCTCAATTTCTGGTGGACTATTCCTTCCTAATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate