GTF3C2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008346
Fusion event
HBV-GTF3C2 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
precore/core protein|Core and e antigen|Polymerase|
Start
2414
Orient
+
Integrated sequence
CTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCC| |GCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGT
Host Sequence
Chromosome
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
27569026/27346159 (Hg38)
End
27569026/27346159 (Hg38)
Orient
+
Location type
Intronic
Target gene
GTF3C2
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-16-5p ; hsa-mir-10a-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1301/Upstream/2017438; hsa-mir-10b/Downstream/650208;
Nearest TSS
ENST00000437798/Upstream/2527; ENST00000453289/Downstream/10087;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/37562, chr2-CpG: 74/Downstream/10270
Upstream sequence
acccagactggagtggtgcagtggtgtgatcacagctcactgcagccttgtcctccagagctcaagcaatcctcctgcctcagcctcccaagtagctagg
Downstream sequence
actataggcatgtatcaccatgcctggctaatttttaaattttttgtagagatgaggtctcactacgttgcccaggatggtcttgaattcctgggctcaa
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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