C1orf229 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014911
Fusion event
HBV-C1orf229 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp2 pre-S1/pre-S2/S;HBVgp2 pre-S2/S
Start
3205
Orient
-
Integrated sequence
CCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCATGCAGTGG| |
Host Sequence
Chromosome
chr1
Cytoband
q44
Reference genome
GRCh37/hg19
Start
247279437/247116135 (Hg38)
End
247279437/247116135 (Hg38)
Orient
+
Location type
Promoter
Fragile sites / regions
FRA1I
Target gene
C1orf229
miRNAs that regulate target gene
hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-6789-3p ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-744-5p ; hsa-mir-3648 ; hsa-mir-146b-3p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-134-3p ; hsa-mir-6775-5p ; hsa-mir-5090
Nearest miRNA
hsa-mir-101-1/Upstream/3769880; hsa-mir-3124/Downstream/85832;
Nearest TSS
ENST00000473358/Upstream/3718; ENST00000474792/Downstream/33815;
Nearest CpG islands
chr1-CpG: 17/Target, None/Upstream, None/Downstream
Upstream sequence
CATCACGGGGAGGGGGCGTGTCCCTGTGGGAGGGTGACAGCAAGGTCATCACGGGGAGGGGGCGTGTCCCTGTGGGCGGGTGACAGCAAGGTCATCACGG
Downstream sequence
GGAGGGGGCGTGTCCCTGTGGGCGGGTGACAGCAAGGTCATCACTGGGAGGGGGCGTGTCCCTGTGGGGGGGGTGACAGCAAGGTCATCACGGGGAGGGG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate