Basic Information
VIS ID
TVIS30008424
Fusion event
HIV-CHCHD6 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
chr3
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
126498810/126779967 (Hg38)
End
126498810/126779967 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHCHD6
miRNAs that regulate target gene
hsa-mir-296-3p
Nearest miRNA
hsa-let-7g/Upstream/989415; hsa-mir-12124/Downstream/795299;
Nearest TSS
ENST00000440867/Upstream/49403; ENST00000515867/Downstream/74897;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/75201, chr3-CpG: 27/Downstream/169449
Upstream sequence
gaaaaagtcatgtcctatttatctttacttctctttagcatccagctcagtatctactatataCTGGTCTTGTGAGTGCATCAGAGCCAGCTGTAGAGAC
Downstream sequence
TTAATCAATGAAAATGTGAGAGAATATTCCTTTTGGTCAGTTAAGTGTGTTCCAGATCCTGCCAATGAGCTTATATCACTAATACTGTAGTAAGCAAATC
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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