CNRIP1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013977
Fusion event
HBV-CNRIP1 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
X protein|precore/core protein|
Start
1828
Orient
+
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr2
Cytoband
p14
Reference genome
GRCh37/hg19
Start
68530090/68302958 (Hg38)
End
68530090/68302958 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
CNRIP1
miRNAs that regulate target gene
hsa-mir-221-3p ; hsa-mir-100-3p ; hsa-mir-3977 ; hsa-mir-4795-3p
Nearest miRNA
hsa-mir-1301/Upstream/1944630; hsa-mir-10b/Downstream/800724;
Nearest TSS
ENST00000437798/Upstream/41728; ENST00000474788/Downstream/16442;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/50050, chr2-CpG: 75/Downstream/16249
Upstream sequence
ttttttttgagacggagtctccctgtcgcccaggctggagtgcagtggtgcgatctcggctcactgcaggctccgccccccggggttcacgccattctcc
Downstream sequence
tgcctcagcctcccgagtagctgggactacaggcgcccgctacctcgcccggctaattttttgtatttttagtagagacggggtttcactgtgttagcca
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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