GRIK1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007471
Fusion event
HBV-GRIK1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
S protein|Polymerase|large S protein|middle S protein|
Start
234
Orient
+
Integrated sequence
GATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTC| |ACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATC
Host Sequence
Chromosome
chr21
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
31005264/29632944 (Hg38)
End
31005264/29632944 (Hg38)
Orient
+
Location type
Intronic
Target gene
GRIK1
Nearest miRNA
hsa-let-7c/Upstream/2678901; hsa-mir-3197/Downstream/742350;
Nearest TSS
ENST00000624081/Upstream/36904; ENST00000608759/Downstream/24462;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/333479, chr21-CpG: 61/Downstream/306124
Upstream sequence
cccttgcaacatttcttgttggagactgttcacccagccactgattgactatttcaggaataggTGTCTTAGTGCTTTAGTTATtgctgtggttcaaagg
Downstream sequence
cttttgtctccttgaaaattcatgtagaaacttaatctccaatgccacagtattaagaggtggggcctttaggaaaggattaagtcatgaggctggagcc
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
Curate