Basic Information
VIS ID
TVIS30011283
Fusion event
HIV-CNN3 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
chr1
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
95385378/94919822 (Hg38)
End
95385378/94919822 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1M
Target gene
CNN3
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-7-5p ; hsa-mir-375 ; hsa-mir-124-3p ; hsa-mir-122-5p ; hsa-mir-652-3p ; hsa-mir-28-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-651-5p ; hsa-mir-633 ; hsa-mir-4255 ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-577 ; hsa-mir-888-5p ; hsa-mir-100-3p ; hsa-mir-548c-3p ; hsa-mir-142-3p ; hsa-mir-4668-5p ; hsa-mir-384 ; hsa-mir-3685 ; hsa-mir-202-5p ; hsa-mir-337-3p ; hsa-mir-561-3p
Nearest miRNA
hsa-mir-101-1/Upstream/376043; hsa-mir-11399/Downstream/3125420;
Nearest TSS
ENST00000473358/Upstream/16501; ENST00000452846/Downstream/4625;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/99059, chr1-CpG: 136/Downstream/6459
Upstream sequence
ATAAATGCTTAGGTTACAACTGACCCAGAAGAGTCCTTCCAAGCACAAAAGGCCTCCTCTTTTCTCTGCATTCATGCCTCCAATTCCCTGGCCTTCCCAC
Downstream sequence
CGCAGACACAGCACTCAACAGTCACGCCCACACCCTGAAGCTTCCTGGTCCCTCCCTACCTTGTGGGGGAAAACTAAGCATTAGTCTTCTCCACTCAAGG
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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