ARNT2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008318
Fusion event
HBV-ARNT2 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
2390
Orient
-
Integrated sequence
CAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCC| |TCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGG
Host Sequence
Chromosome
chr15
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
80755812/80463471 (Hg38)
End
80755812/80463471 (Hg38)
Orient
-
Location type
Intronic
Target gene
ARNT2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-let-7e-5p
Nearest miRNA
hsa-mir-10393/Upstream/1253600; hsa-mir-11181/Downstream/117632;
Nearest TSS
ENST00000557528/Upstream/18319; ENST00000531595/Downstream/6772;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/58420, chr15-CpG: 187/Downstream/231384
Upstream sequence
GCCTCTACAGTCTCAGTTCATATGAACCAGACAAGTGTTGCAGATAAGCTGGGTAGAATTTGGTACAGTGTTGCTTATGAGCAACTAAAGTTGCTTCAGT
Downstream sequence
gggttagggttagggttagggttagggttagCACACACTGGAATGAAAGATTTTGTAGGAGGGGTGGCTTTCTAACACCATGCTGATATGGATGGGTGAt
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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