C5orf34 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010018
Fusion event
HBV-C5orf34 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
X protein|
Start
1727
Orient
-
Integrated sequence
GCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTA| |AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT
Host Sequence
Chromosome
chr5
Cytoband
p12
Reference genome
GRCh37/hg19
Start
43512045/43511943 (Hg38)
End
43512045/43511943 (Hg38)
Orient
+
Location type
Intronic
Target gene
C5orf34
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-181b-5p
Nearest miRNA
hsa-mir-10397/Upstream/4954382; hsa-mir-103a-1/Downstream/10439561;
Nearest TSS
ENST00000502646/Upstream/885; ENST00000504277/Downstream/3081;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/27490, chr5-CpG: 17/Downstream/3088
Upstream sequence
taaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaac
Downstream sequence
tttatctgctgaccttccctccactattgtcctatgaccctgccaaatccccctctgtgagaaacacccaagaatgatcaactaaaaaaaaaaaaaaaaa
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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