Basic Information
VIS ID
TVIS20001829
Fusion event
HPV-RAB3C integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr5
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
57912827/58617000 (Hg38)
End
57912827/58617000 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5H
Target gene
RAB3C
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-8485 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-8064 ; hsa-mir-502-5p ; hsa-mir-3189-3p ; hsa-mir-212-5p ; hsa-mir-5587-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-6867-5p ; hsa-mir-3926 ; hsa-mir-8069 ; hsa-mir-648 ; hsa-mir-6872-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-491-3p ; hsa-mir-6836-3p ; hsa-mir-6873-3p ; hsa-mir-4633-5p ; hsa-mir-103a-2-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6845-3p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-532-5p
Nearest miRNA
hsa-mir-10397/Upstream/86891; hsa-mir-103a-1/Downstream/1086606;
Nearest TSS
ENST00000502646/Upstream/33960; ENST00000507977/Downstream/27364;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/33650, chr5-CpG: 120/Downstream/422009
Upstream sequence
TTACACTTTACCAACCTAAATTTGAAATTTTTAAATTATTGTCCCAAGAGAATAAGTATAATTTAATCCTTCTAAAATAATTACTAGTGAAATAATGGTT
Downstream sequence
tcattttaatatggaaatattaaaagtacccatctcattgggttactgtgagggattaaataagttagtatccggcacattgtttgaactataTATATTT
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
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