Basic Information
VIS ID
TVIS30010732
Fusion event
HIV-SCAF4 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
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
33055982/31683669 (Hg38)
End
33055982/31683669 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCAF4
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-331-3p ; hsa-mir-25-3p ; hsa-mir-374a-5p ; hsa-mir-374b-5p ; hsa-mir-655-3p ; hsa-mir-374c-5p ; hsa-mir-185-3p ; hsa-mir-6090 ; hsa-mir-6829-5p ; hsa-mir-744-5p ; hsa-mir-4508 ; hsa-mir-17-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-369-3p
Nearest miRNA
hsa-let-7c/Upstream/1308291; hsa-mir-3197/Downstream/1866993;
Nearest TSS
ENST00000624081/Upstream/16422; ENST00000610276/Downstream/9661;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/23325, chr21-CpG: 145/Downstream/47474
Upstream sequence
CAGCAATTTTACAAATAGTTTCAGGTAGTCTAACATCCATGGACCTTAGATTAGGATTCATAATCAAGGGTGTGTATGTGGGATGTGAAGAAGGGGTTGC
Downstream sequence
TATCCAGATTCTGTGATTCTTGTGCAATCATGTTAATATGAAAAAAAAAAAAGCATAACAAAAAAGATGCAAAGATGTTCCCTGGTTCCTAGTCCAATGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate