Basic Information
VIS ID
TVIS30011276
Fusion event
HIV-MCOLN2 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
p22.3
Reference genome
GRCh37/hg19
Start
85431424/84965741 (Hg38)
End
85431424/84965741 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
MCOLN2
miRNAs that regulate target gene
hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-4325 ; hsa-mir-7703 ; hsa-mir-601 ; hsa-mir-4641 ; hsa-mir-3129-5p ; hsa-mir-199b-3p ; hsa-mir-199a-3p ; hsa-mir-25-3p ; hsa-mir-367-3p ; hsa-mir-92b-3p ; hsa-mir-363-3p ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-6731-3p ; hsa-mir-1273f ; hsa-mir-1289 ; hsa-mir-129-5p ; hsa-mir-1304-3p ; hsa-mir-143-3p ; hsa-mir-3198 ; hsa-mir-4294 ; hsa-mir-4309 ; hsa-mir-4534 ; hsa-mir-4708-5p ; hsa-mir-4770 ; hsa-mir-6088 ; hsa-mir-6514-5p ; hsa-mir-8055 ; hsa-mir-8082
Nearest miRNA
hsa-mir-101-1/Upstream/7905539; hsa-mir-11399/Downstream/168053;
Nearest TSS
ENST00000473358/Upstream/35897; ENST00000528899/Downstream/31199;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/72237, chr1-CpG: 86/Downstream/31161
Upstream sequence
GTAAAACTTCAGGTCTTCCCTTAGACATTCTTCTTTCATCTCAGAATCACGATGTGCCATTGCATTTCTGCCACAGAAGATTAATTTTAAATATCCAGGA
Downstream sequence
AAGCCTCTCCCTCAGTTCCTTTTGAAGTAACTTGCTTTCCCTAAACTTGAGTTGGTACATATGGCATGTCATATACTGAAAAGCCTCTTTATGAACACAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate