Basic Information
VIS ID
TVIS20005066
Fusion event
HPV-PTHLH integration
Validated
Yes
Detection method
RNA-Seq+RT-PCR
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Good
Reported year
2014
PubMed ID
24390348
Virus Sequence
Virus name
HPV
Subtype
HPV45
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
p11.22
Reference genome
GRCh37/hg19
Start
28111538/27958605 (Hg38)
End
28122517/27969584 (Hg38)
Location type
Intronic
Target gene
PTHLH
miRNAs that regulate target gene
hsa-mir-33a-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/2084526; hsa-let-7i/Downstream/14354116;
Nearest TSS
ENST00000382841/Upstream/88; ENST00000544780/Downstream/463;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/177800, chr12-CpG: 87/Downstream/506
Nearby gene
KLHL42 ; CCDC91(+) ;
Upstream sequence
acttccctgtatgctaccaaagaggccctccgatatttatattagctttcagttggtgaataattgttttccacttgttattttctaaagtgtcaattta
Downstream sequence
CCCTTTTTAGCCCGCTCTCAAAAAGCCTCTTCAACATCAAGGGCATCTCCCAAGTTGAAAAGAAAAAAAATTTCTCTGGAGCCTCTCAGCACTTACTTAT
Target sequence
GGTTAGTTTTCTTTACAAATGAAAACATAAAATATAAAGGATATAAGCTAAGGAATGCAAAATCACAATGGAAAGAGATTCAGGGAACTTCTTGTAAATATCTCCTGCAAGAGGTATCTGTGGGATCCACCCAGATCTCCATAACCTCTGTTACAGGCAGGGTCTTCAACCTGACTTAGCCCATATGTGCGGAAAGGAAAAGGGCCTGCGTTTCCAATCATGCTGTCAGAAAAAGGAGACTGTGGAAAAATTTTC
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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