LRBA _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013925
Fusion event
HBV-LRBA integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|large S protein|middle S protein|
Start
133
Orient
+
Integrated sequence
CCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATCTTCTCGA| |GGATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCT
Host Sequence
Chromosome
chr4
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
151525475/150604323 (Hg38)
End
151525475/150604323 (Hg38)
Orient
+
Location type
Intronic
Target gene
LRBA
miRNAs that regulate target gene
hsa-mir-1229-3p ; hsa-mir-93-3p ; hsa-mir-769-5p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-12113/Upstream/2821655; hsa-mir-1305/Downstream/1885004;
Nearest TSS
ENST00000502981/Upstream/22401; ENST00000503002/Downstream/75344;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/20390, chr4-CpG: 89/Downstream/411178
Upstream sequence
TGTTTTTGTTCCATTTATTATCTGTTTTTTTGTCTGTAACATTTTAGTATAAGTTTCAATTCATTTATATAATTTACTGAACTAGTAGAAATATATTTCA
Downstream sequence
agcccataagttggaggttgctgtgagctctgatgatggcaatgaactctagcctggctgacagagggagagactatctccaaaaaaaaaaaGGAATTAT
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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