MAGI2 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004306
Fusion event
HPV-MAGI2 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
L2-L1
Start
5572
Integrated sequence
GGTCCTGATATACCCATTAATATAACTGACCAAGCTCCTTCATTAATTCCTATAGTTCCAGGGTCTCCACAATATACAATTATTGCTGATGCAGGTGACT| |TTTATTTACATCCTAGTTATTACATGTTACGAAAACGACGTAAACGTTTACCATATTTTTTTTCAGATGTCTCTTTGGCTGCCTAGTGAGGCCACTGTCT
Host Sequence
Chromosome
chr7
Cytoband
q21.11
Reference genome
GRCh37/hg19
Start
77817658/78188341 (Hg38)
End
77817658/78188341 (Hg38)
Location type
Intronic
Target gene
MAGI2
miRNAs that regulate target gene
hsa-mir-655-3p ; hsa-mir-487b-3p ; hsa-mir-134-5p ; hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-3944-5p ; hsa-mir-5690 ; hsa-mir-4660 ; hsa-mir-4704-5p ; hsa-mir-3912-5p ; hsa-mir-487a-3p
Nearest miRNA
hsa-mir-10525/Upstream/2273072; hsa-mir-10399/Downstream/14015674;
Nearest TSS
ENST00000635602/Upstream/10274; ENST00000428298/Downstream/6722;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/147601, chr7-CpG: 26/Downstream/1263908
Junction sequence
ATGGGAAACGTTTACGTCGTTTTCGTAACATGTAATAACTAGGATGTAAATAA---TGCACAATGTGATATATTAGAAAATCCAGCTGAAAGGCAAATTTTTTT
* 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.
Curate