Basic Information
VIS ID
TVIS20003755
Fusion event
HPV-SUSD5 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Perfect
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Start
879
End
969
Orient
-
Integrated sequence
GGTACCAATGGGGAAGAGGGTACGGGATGTAATGGATGGTTTTATGTAGAGGCTGTAGTGGAAAAAAAAACAGGGGATGCTATATCAGATG
Host Sequence
Chromosome
chr3
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
33208742/33167250 (Hg38)
End
33208742/33167250 (Hg38)
Location type
Intronic
Target gene
SUSD5
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-526b-5p ; hsa-mir-4459 ; hsa-mir-4433a-3p ; hsa-mir-4768-3p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-5584-3p ; hsa-mir-1273g-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-196a-3p ; hsa-mir-661 ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-939-3p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-6875-3p ; hsa-mir-6794-3p ; hsa-mir-6867-5p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-483-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p
Nearest miRNA
hsa-mir-12127/Upstream/660861; hsa-let-7g/Downstream/2577226;
Nearest TSS
ENST00000440867/Upstream/19529; ENST00000483037/Downstream/51543;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/52737, chr3-CpG: 103/Downstream/51177
Upstream sequence
GTTGCCTGCACACACAAAAAAGTGGGAGAGGAGAACATACTCATCT
Junction sequence
GTTGCCTGCACACACAAAAAAGTGGGAGAGGAGAACATACTCATCTAATCTGATATAGCATCCCCTGTTTTTTTTTCCACTACAGCCTCTACATAAACCCATCCATTACATCCCGTACCCTCTTCCCCATTGGTACCT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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.
Curate