Basic Information
VIS ID
TVIS30002449
Fusion event
HIV-IL21R 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
chr16
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
27420947/27409626 (Hg38)
End
27420947/27409626 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16E
Target gene
IL21R
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-7-5p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-448 ; hsa-mir-3607-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-5580-3p ; hsa-mir-8485 ; hsa-mir-7106-5p ; hsa-mir-4748 ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6763-5p ; hsa-mir-6857-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-128-2-5p ; hsa-mir-128-1-5p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-6781-5p ; hsa-mir-766-5p ; hsa-mir-483-5p ; hsa-mir-6782-3p ; hsa-mir-8064 ; hsa-mir-502-3p ; hsa-mir-501-3p
Nearest miRNA
hsa-mir-1225/Upstream/1384316; hsa-mir-11401/Downstream/981356;
Nearest TSS
ENST00000527434/Upstream/7452; ENST00000561953/Downstream/17618;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/95252, chr16-CpG: 56/Downstream/140062
Upstream sequence
tgtagtttatttttctgtatggtgtaaggtaggggtcaaggtttactttttccatatgaatattcaattaatataccatcatttaagaaaacatgttttc
Downstream sequence
tctccactgccttgcactggtgacttactgaaaatcaagtggttgaatacatgagtttatttctactgtttctgttcttttccattggttagtttgtttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate