Basic Information
VIS ID
TVIS30004925
Fusion event
HIV-KCTD20 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
chr6
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
36449858/36482081 (Hg38)
End
36449858/36482081 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
KCTD20
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-548b-3p ; hsa-mir-340-5p ; hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-mir-331-3p ; hsa-mir-149-5p ; hsa-mir-498 ; hsa-mir-4279 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-4722-3p ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-4277 ; hsa-mir-6868-3p ; hsa-mir-7977 ; hsa-mir-205-5p ; hsa-mir-4704-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-150-5p ; hsa-mir-562 ; hsa-mir-5697 ; hsa-mir-6778-3p ; hsa-mir-6814-5p
Nearest miRNA
hsa-mir-1236/Upstream/817292; hsa-mir-10398/Downstream/140355;
Nearest TSS
ENST00000381078/Upstream/39043; ENST00000620242/Downstream/65389;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/38719, chr6-CpG: 40/Downstream/65137
Upstream sequence
TACTGAGGCAGCACATTAAATGATGGTGTCATTCTTCTCTTAATTCATTTTAAATCCTTTTGAATTGGTAATAAGTCAAAATTCAAAAAACATAAAAGGA
Downstream sequence
TATACACTAAAAAGTCTTATTCTCACTCCTGCCCCATCTATCCAGTTTTGCTTCTCAATTTCTTTTACAGGCTTCCAGGTATATTCAGTGTACATATATA
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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