GPM6A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018689
Fusion event
HBV-GPM6A integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1803
Integrated sequence
CATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTG| |CGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCA
Host Sequence
Chromosome
chr4
Cytoband
q34.2
Reference genome
GRCh37.55
Start
176856872/175935721 (Hg38)
End
176856872/175935721 (Hg38)
Location type
Intron6
Target gene
GPM6A
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-218-5p ; hsa-mir-17-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548e-5p
Nearest miRNA
hsa-mir-12113/Upstream/1511857; hsa-mir-1305/Downstream/6233572;
Nearest TSS
ENST00000502981/Upstream/28405; ENST00000509792/Downstream/35226;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1106288, chr4-CpG: 26/Downstream/65601
Nearest cancer related gene
GPM6A(OG, No orient, 0)
Upstream sequence
TCTACCTTTTGCTGTTGTCAGAAAATCATAAAAGAGATAGGATTGGCAATTATTGCCTCCAGGAGAGGAAAAAATCAAAGGTAATAGGGCTTATTGAAAT
Downstream sequence
ctagttaatctatcaattcaatataaccccaataaaaattttataattttataagttttgtaaaacataacaagcaaatttatagtggatgttcaagagT
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate