RANBP3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010179
Fusion event
HBV-RANBP3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|Core and e antigen|
Start
2301
Orient
+
Integrated sequence
CTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGA| |CCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAA
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
5925613/5925602 (Hg38)
End
5925613/5925602 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
RANBP3
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-455-3p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-1227/Upstream/992862; hsa-let-7e/Downstream/464036;
Nearest TSS
ENST00000633603/Upstream/1728; ENST00000587836/Downstream/163;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/10312, chr19-CpG: 145/Downstream/51827
Upstream sequence
AGAGGGGCCTGAGAGCAACCTGGATTCTGGGCCTGAGTCGGGCACGGGGACCACAGACCCCTCTCTGGCAGAAGCCCTCGCGGCCACCTGCATCGCCATG
Downstream sequence
CCAGGCTGGCCGCTGACACCGAGACACACACCTGGAACTGATATACTGGAGGAAATAGTTCGTTGCGGTTGGCGTGTCTGCGCTGGGGTGTCCAGCATTC
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.
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