Basic Information
VIS ID
TVIS30009334
Fusion event
HIV-CALN1 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
chr7
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
71273461/71808476 (Hg38)
End
71273461/71808476 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7J
Target gene
CALN1
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-675-5p ; hsa-mir-4635 ; hsa-mir-6849-3p ; hsa-mir-596 ; hsa-mir-634 ; hsa-mir-4520-2-3p ; hsa-mir-3692-3p ; hsa-mir-4520-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-3614-5p ; hsa-mir-890 ; hsa-mir-212-3p ; hsa-mir-132-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-7153-3p ; hsa-mir-137
Nearest miRNA
hsa-mir-1183/Upstream/500706; hsa-mir-10399/Downstream/889427;
Nearest TSS
ENST00000635602/Upstream/472927; ENST00000434423/Downstream/2019;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/675080, chr7-CpG: 187/Downstream/527296
Upstream sequence
ataattattttataacaataaggattaataatttttaataaaCATAATACTTGCAGTATGGTTATTAATAAATATAATTGCTATTAACGATCAttatata
Downstream sequence
ttaatcatattacattaattataaataagctattgacaaatcattaaagcaaacccagcaaggcttctgtttggtagcccctttgtcaggcatttatttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate