GABBR2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017835
Fusion event
HBV-GABBR2 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
pre-S1/pre-S2/S;Polymerase;
Start
3149
Integrated sequence
CTCCACCACACGGCAATCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATATTGACAACAGTACCAGCAGCGCCTCCTCCTGCCTCCACCAATCGGCAGTC| |AGGAAGACAGCCTACTCCCATCTCTCCACCTCTAAGAGACAGTCATCCTCAGGCCATGCAGTGGAA
Host Sequence
Chromosome
chr9
Cytoband
q22.33
Reference genome
GRCh37/hg19
Start
101104889/98342607 (Hg38)
End
101104889/98342607 (Hg38)
Location type
Intronic
Target gene
GABBR2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-129-5p ; hsa-mir-34c-5p ; hsa-mir-144-5p ; hsa-mir-599
Nearest miRNA
hsa-let-7a-1/Upstream/113390; hsa-mir-12126/Downstream/8258321;
Nearest TSS
ENST00000422679/Upstream/36036; ENST00000610463/Downstream/28964;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/86308, chr9-CpG: 230/Downstream/364690
Upstream sequence
ACAAATCCTGGGTGGTGATGGCGGTGTCCTCCTCAAGGGGCCCCGAGGGCGGGGAAGGGAAGGCATCCGAGCATGGGTTGGTGTCTTCACCATCACTCTG
Downstream sequence
GGGACCAGAAGGCGGCTGCAGGACGCGACCGAGCAGGACCCCAGGCCCGGGAACGACGTCGCGAGCGCTGAGACTGCCGGGCCTCCCAGCCCATCTGGCA
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.
Curate