MARK1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014699
Fusion event
HBV-MARK1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27064257
Virus Sequence
Virus name
HBV
Reference genome
AP011098.1
Start
680
Orient
+
Integrated sequence
TCGGACGGAAACTGCACTTGTATTCCCATCCCATCATCCTGGGCTTTCGCAAGATTCCTATGGGAGTGGGCCTCAGTCCGTTTCTCCTGGCTCAGTTTAC| |TAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAACATCTT
Host Sequence
Chromosome
chr1
Cytoband
q41
Reference genome
GRCh37/hg19
Start
220821611/220648269 (Hg38)
End
220821611/220648269 (Hg38)
Orient
+
Location type
Intronic
Target gene
MARK1
miRNAs that regulate target gene
hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-1283
Nearest miRNA
hsa-mir-101-1/Upstream/447650; hsa-mir-1182/Downstream/3608771;
Nearest TSS
ENST00000473358/Upstream/119419; ENST00000294889/Downstream/41576;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/119263, chr1-CpG: 85/Downstream/41896
Upstream sequence
TATAAACTTATGGTATAATTATATAAAATATCACTTTACTGTGAAAGAACCCCCAAAAAGTTGTTTACATGGTTGGTTTCCACATTGGGGAAGTTACCAA
Downstream sequence
ACTACAGTTTAAGAGTCTGCAAGGGTAGTTTTCCACCTAGTTCCCAAATCCTCAGCAGAAAGAACCTTACCTGCTTAGTGATAACTAGATCTTTTTTATT
Reference
Fujimoto, A., et al. Whole-genome mutational landscape and characterization of noncoding and structural mutations in liver cancer. Nat Genet ,2016,48(5): 500-509.
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