RORB _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007081
Fusion event
HBV-RORB integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26553052
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
1950
End
2163
Orient
-
Host Sequence
Chromosome
chr9
Cytoband
q21.13
Reference genome
GRCh37/hg19
Start
77140636/74525720 (Hg38)
End
77140636/74525720 (Hg38)
Orient
+
Location type
Intron
Target gene
RORB
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-623 ; hsa-mir-519d-5p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-4684-5p ; hsa-mir-3675-3p ; hsa-mir-6771-3p
Nearest miRNA
hsa-mir-101-2/Upstream/3715636; hsa-let-7a-1/Downstream/9444028;
Nearest TSS
ENST00000422679/Upstream/26593; ENST00000396204/Downstream/89880;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/26709, chr9-CpG: 48/Downstream/361457
Upstream sequence
gaggctcaggtgagagaatcccttgagcctgggaagtcgaggctgcagtgagctatgattgcaccactgcactccagcctgggcaatagagcaagacctc
Downstream sequence
AGTATAGAATTCTACTGTTTTTTGCTTTCCATCCCCATTCTAACAGAACCTCGATGAAATTCAGGAACCCTTTGCGTCCCGAAATTCCCAACTAAatgaa
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.
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