GRIN3A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019936
Fusion event
HBV-GRIN3A integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2013
PubMed ID
24085110
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Host Sequence
Chromosome
chr9
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
104362859/101600577 (Hg38)
End
104363084/101600802 (Hg38)
Location type
Intronic
Target gene
GRIN3A
miRNAs that regulate target gene
hsa-mir-542-5p
Nearest miRNA
hsa-let-7a-1/Upstream/3371360; hsa-mir-12126/Downstream/5000126;
Nearest TSS
ENST00000422679/Upstream/5556; ENST00000374801/Downstream/12720;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/66627, chr9-CpG: 115/Downstream/136765
Upstream sequence
AAACAGAGCTAATTGCTTAATTTGTCCTTCACAATCTGTTCCTTTCTTATCCATCAATTTTTTCTCTAATGATATTATTTATTTCAAAGTTTCCTTCTGT
Downstream sequence
GTTTGACCATTCCCCATACACTGAAGAAAAGACAACATTTACTCAATTATTCTTTATAGGGCATCATTTATTCAATCATGTTTTAACATGTAAAGCATTG
Target sequence
tcaagaagcagaagaagttaactagatgttctgggaaggaatgagtgttccaggtagaagaaactccatgtgcaaagaggccctagggcaggaggaacaaaacaagtaggaggaactgaaagaatgccagtgtgactggagtagggaggtcaagggagagcatatggagcataccggagtagggaggtcaagggagagcaTGGTATTGGACGAAGTGATAAGATG
Reference
Tang, K. W., et al.The landscape of viral expression and host gene fusion and adaptation in human cancer. Nat Commun,2013, 4: 2513.
Curate