XYLT1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012481
Fusion event
HBV-XYLT1 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
S protein|Polymerase|large S protein|middle S protein|
Start
418
Orient
+
Integrated sequence
TCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGC| |TGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATG
Host Sequence
Chromosome
chr16
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
17470489/17376632 (Hg38)
End
17470489/17376632 (Hg38)
Orient
+
Location type
Intronic
Target gene
XYLT1
miRNAs that regulate target gene
hsa-mir-16-5p
Nearest miRNA
hsa-mir-1225/Upstream/1007690; hsa-mir-11401/Downstream/967381;
Nearest TSS
ENST00000527434/Upstream/6907; ENST00000564852/Downstream/26869;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/1002034, chr16-CpG: 103/Downstream/93655
Upstream sequence
GAACAGGGACCTggctgggcacagtggctcacgcctataatcccaacactttgagaggccaaggcaggaggatcacttgaggtcaggagttcaagaccgg
Downstream sequence
cctgaccaagatggtgaaaccccgtctccactaaaaacacaaatattagctgggcatcatggcttgcacctgtaatcccagctacttagaaagctgaggc
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.
Curate