GRIN3A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019602
Fusion event
HBV-GRIN3A integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1826
Integrated sequence
AAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTT| |TCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAA
Host Sequence
Chromosome
chr9
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
104363084/101600802 (Hg38)
End
104363084/101600802 (Hg38)
Location type
Intron3
Target gene
GRIN3A
miRNAs that regulate target gene
hsa-mir-542-5p
Nearest miRNA
hsa-let-7a-1/Upstream/3371585; hsa-mir-12126/Downstream/5000126;
Nearest TSS
ENST00000422679/Upstream/5781; ENST00000374801/Downstream/12720;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/66852, chr9-CpG: 115/Downstream/136765
Upstream sequence
GTTAACTTTGCTTGTCATTTCCATTCTTATATTTCTTATTTACTTCTCTTTTTTAATTGCAAGAGTTGATATTTATTGATCTGGTTTGTAACTTTCTGTT
Downstream sequence
GTAAGTTCTGGGAGCTGAGCTGGGTGGTGACGTGCTCAATGGTGGGTTACCCCGACCCAGGGCAATCTGTAGTTTTCAATTATTTTCTCCCCTTGACAGT
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13
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