TCTEX1D1 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004308
Fusion event
HPV-TCTEX1D1 integration
Validated
Yes
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
25313082
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
AY686584
Gene
E1
Start
2567
Integrated sequence
ATTTAAGAAATGCATTGGATGGAAATTTAGTTTCTATGGATGTAAAGCATAGACCATTGGTACAACTAAAATGCCCTCCATTATTAATTACATCTAACAT| |TAATGCTGGTACAGATTCTAGGTGGCCTTATTTACATAATAGATTGGTGGTGTTTACATTTCCTAATGAGTTTCCATTTGACGAAAACGGAAATCCAGTG
Host Sequence
Chromosome
chr1
Cytoband
p31.3
Reference genome
GRCh37/hg19
Start
67230089/66764406 (Hg38)
End
67230089/66764406 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
TCTEX1D1
Nearest miRNA
hsa-mir-101-1/Upstream/135889; hsa-mir-11399/Downstream/1419112;
Nearest TSS
ENST00000473358/Upstream/11874; ENST00000448074/Downstream/10640;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11796, chr1-CpG: 27/Downstream/160791
Junction sequence
CTGTAGGATTATTAATTGGCC---TAATGCTGGTACAGATTCTAGGTGGCCTTA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Parfenov, M., et al. Characterization of HPV and host genome interactions in primary head and neck cancers. Proc Natl Acad Sci U S A,2014,111(43): 15544-15549.
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