Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016952
Fusion event
HBV-SHROOM3 integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
B
Reference genome
Start
702
End
790
Integrated sequence
TTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTT
Host Sequence
Chromosome
chr4
Cytoband
q21.1
Reference genome
Start
End
77372892/76451739 (Hg38)
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6514-3p ; hsa-mir-4314 ; hsa-mir-7977 ; hsa-mir-3649 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-383-3p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-1537-5p ; hsa-mir-3607-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-338-3p ; hsa-mir-4530 ; hsa-mir-646
Nearest miRNA
hsa-mir-12113/Upstream/10174712; hsa-mir-1243/Downstream/121829;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/30086, chr4-CpG: 23/Downstream/134185
Upstream sequence
ATTTGATAACATTTGGAAAGAGGTTAATGGAAACCAACGTACAAACTACAGAATAGGAGAACACGGCAGATTTCTAAATGCCAATAGCATTTAGAAGCTG
Downstream sequence
GAAATTGGCTATTGGAAGCACAAAACAAAATTGAAAGTTTAGAAATGGACCCATTAGATATATAATAATTTAGTATAGGATGAAAGAAGAATTTTTAAAG
Target sequence
aaactcattgaactgtttccttaagatctgcacattttactgcacgtaagtcatgccttaaataaaatctgataccttaaataaAGTGAGAGACAGGAA
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.