PEMT _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006878
Fusion event
HBV-PEMT integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25627239
Virus Sequence
Virus name
HBV
Subtype
B2
Reference genome
JQ688405
Region type
Polymerase,S
Start
370
Integrated sequence
CAATTTTCTAGGGGGAACACCCGTGTGTCTTGGCCAAAATTCGCAGTCCCAAATCTCCAGTCACTCACCAACCTGTTGTCCTCCAATTTGTCCTGGTTAT| |CGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTGCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCG
Host Sequence
Chromosome
chr17
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
17466824/17563510 (Hg38)
End
17466824/17563510 (Hg38)
Location type
Intronic
Target gene
PEMT
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-1253/Upstream/1281422; hsa-mir-10226/Downstream/249970;
Nearest TSS
ENST00000595228/Upstream/44430; ENST00000583662/Downstream/13955;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/1427, chr17-CpG: 69/Downstream/27919
Upstream sequence
TCGCAGGGAGGTACCATCTCTGAGTTCCACGGAAATGCGAAGGGGGAAGCCCCAGGATTCTGCAGCAAGAAGCACAGGGTGCCCCTTAGGAAGAAGGGGC
Downstream sequence
AGTTTTGGCCTGAGATAGAGGAAGGCCAGAAAGGCGACTAAAAATTTCATGAGCAAAGATCATTAATAGCAATAGCAACATCGCCCATCCACGCTGGCTT
Reference
Yan, H., et al. Characterization of the genotype and integration patterns of hepatitis B virus in early- and late-onset hepatocellular carcinoma. Hepatology ,2015,61(6): 1821-1831.
Curate