GTF2I _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019845
Fusion event
HBV-GTF2I 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
456
Integrated sequence
AACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTAT| |CAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGT
Host Sequence
Chromosome
chr7
Cytoband
q11.23
Reference genome
GRCh37.55
Start
74146817/74732476 (Hg38)
End
74146817/74732476 (Hg38)
Location type
Intron13
Fragile sites / regions
FRA7J
Target gene
GTF2I
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-21-5p ; hsa-mir-1229-3p ; hsa-mir-10a-3p ; hsa-mir-484 ; hsa-mir-23b-3p ; hsa-mir-99a-5p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-580-5p ; hsa-mir-1252-3p ; hsa-mir-3646 ; hsa-mir-3121-3p
Nearest miRNA
hsa-mir-10525/Upstream/136450; hsa-mir-10399/Downstream/1182721;
Nearest TSS
ENST00000635602/Upstream/4473; ENST00000615596/Downstream/61;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/73724, chr7-CpG: 124/Downstream/55513
Upstream sequence
tcaaggtttgtaaacacaccagtcagcaccctgtgtctagctcagggtttgtgaatgcaccaatcgacacactgtatctacctactctggtggggacttg
Downstream sequence
AGCTCAAGCCATAAAAGCCAAAGGTCCGGTGACGATCCCGTACCCTCTTTTCCAGTCTCATGTTGAAGATCTTTATGTAGAAGGACTTCCTGAAGGAATT
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.
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