Basic Information
VIS ID
TVIS30006381
Fusion event
HIV-MYCBP2 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
chr13
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
77739019/77164884 (Hg38)
End
77739019/77164884 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13E
Target gene
MYCBP2
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-15b-5p ; hsa-mir-183-5p ; hsa-mir-148a-3p ; hsa-mir-196a-5p ; hsa-mir-17-5p ; hsa-mir-377-3p ; hsa-mir-487a-3p ; hsa-mir-493-3p ; hsa-mir-6083 ; hsa-mir-4795-3p ; hsa-mir-496 ; hsa-mir-4742-3p ; hsa-mir-126-5p ; hsa-mir-606 ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1297/Upstream/10946560; hsa-mir-1267/Downstream/533128;
Nearest TSS
ENST00000623511/Upstream/14106; ENST00000471491/Downstream/108627;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/137591, chr13-CpG: 64/Downstream/161515
Upstream sequence
CCTTGGTTTTATCTTATTGTATGATTTAAAACATTTAGACAAGATGATAGCCCCTTTTTGAAAACAGGTTCTACTGTTTACTCAGAAAGGTATAGCCAAC
Downstream sequence
TGAGCAGGTTCAGGGCAGGTATAACTATACTTCAAAGGCTGGGTCATGTTGCACAAACTCCATCCTCTTCATGTATTAAAAGTAGCAAAACAGACCACTG
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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