Basic Information
VIS ID
TVIS30003658
Fusion event
HIV-CCNI 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
chr4
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
77976172/77055019 (Hg38)
End
77976172/77055019 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCNI
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-26b-5p ; hsa-mir-423-5p ; hsa-mir-320a ; hsa-mir-148a-3p ; hsa-mir-92a-3p ; hsa-mir-129-5p ; hsa-mir-133b ; hsa-mir-133a-3p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-455-5p
Nearest miRNA
hsa-mir-12113/Upstream/479393; hsa-mir-1243/Downstream/5698318;
Nearest TSS
ENST00000502981/Upstream/20095; ENST00000512918/Downstream/1030;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/104050, chr4-CpG: 106/Downstream/20249
Upstream sequence
CTTAAAAATAAGAGAAATGGTTAAAAGGAATCTTAAAAATACTATATAAGTTTTATATGAAAAAAAGAGATCACCTAGCCCGTAAATTTAAAATATATAC
Downstream sequence
TTTACTCTTGTCTACTCTTAAGAATGGTTTGCCATTACAACATGAGAAATGTCTTTTAGTTTGGTAACTCTATGTATTCCAATAATAGAAAAACTTAAAA
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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