Basic Information
VIS ID
TVIS30007767
Fusion event
HIV-CCDC93 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
chr2
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
118704590/117947014 (Hg38)
End
118704590/117947014 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
CCDC93
miRNAs that regulate target gene
hsa-mir-7977 ; hsa-mir-561-5p ; hsa-mir-4474-5p ; hsa-mir-6787-3p ; hsa-mir-138-1-3p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-3922-5p ; hsa-mir-6875-3p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-642a-5p ; hsa-mir-22-5p ; hsa-mir-4703-3p ; hsa-mir-130b-5p ; hsa-mir-1248 ; hsa-mir-6769b-3p ; hsa-mir-3183 ; hsa-mir-4723-3p ; hsa-mir-5088-3p ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-5584-3p ; hsa-mir-6874-3p ; hsa-mir-148b-5p ; hsa-mir-3168 ; hsa-mir-4280
Nearest miRNA
hsa-mir-1285-2/Upstream/4225646; hsa-mir-10b/Downstream/9476523;
Nearest TSS
ENST00000437798/Upstream/2934; ENST00000413179/Downstream/1165;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/86427, chr2-CpG: 101/Downstream/66269
Upstream sequence
AGACAAGGAGTAATTAGACGCAATTATTCAACTATTTGGTCCACAAGTCTTATTTTCACATTTCATGAGTTTATTCTGGGACGAAAAGCTAATGAGGTAG
Downstream sequence
CTGCCCTGATCTCCAATTATCAGCCTGGGAAAGTTCTTTTCAGGAGGCTACAGGCAGCTATTCCTCCATCAAAAGAGGTCCTTCTTTCTGAAGGGCTGGT
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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