Basic Information
VIS ID
TVIS30011085
Fusion event
HIV-CCDC171 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
chr9
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
15986451/15986453 (Hg38)
End
15986451/15986453 (Hg38)
Orient
-
Location type
Intronic
Target gene
CCDC171
miRNAs that regulate target gene
hsa-mir-6832-3p ; hsa-mir-4753-3p ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-130b-5p ; hsa-mir-4282 ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-500a-3p ; hsa-mir-642a-5p ; hsa-mir-6804-3p ; hsa-mir-600 ; hsa-mir-3130-3p ; hsa-mir-4469 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-1306-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-367-3p ; hsa-mir-363-3p ; hsa-mir-32-5p ; hsa-mir-25-3p ; hsa-mir-875-5p
Nearest miRNA
hsa-mir-101-2/Upstream/9978549; hsa-let-7a-1/Downstream/2586853;
Nearest TSS
ENST00000422679/Upstream/98658; ENST00000478913/Downstream/56345;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/433117, chr9-CpG: 30/Downstream/740408
Nearby gene
CCDC171(No orient, 14554)
Upstream sequence
ATGTCTGTCTGCAATCACCTTCAGAAAGGCTGTCTTGCTGCAGAGGGATGCCATAAGACACTTAAAGTTCTCTTTCCAGCTGATCCCCGAACTTACTTTA
Downstream sequence
CTAATGCAGCGGGTGTAACAGCAACAGGCTTTGAAATGCAAAGCCTTCCTTCAGTTATGCGCTCATTAAAAACTAACCTGCTCTCGTAAAAATCCAAGAA
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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