SLC39A12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014226
Fusion event
HBV-SLC39A12 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
Polymerase|large S protein|middle S protein|
Start
27
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCTG| |CAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATCT
Host Sequence
Chromosome
chr10
Cytoband
p12.33
Reference genome
GRCh37/hg19
Start
18322863/18033934 (Hg38)
End
18322863/18033934 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLC39A12
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1265/Upstream/188741; hsa-mir-107/Downstream/2518036;
Nearest TSS
ENST00000439456/Upstream/23372; ENST00000468177/Downstream/106743;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/389598, chr10-CpG: 122/Downstream/106262
Upstream sequence
attctggtatgttgtgtctttgctctcattggtttcaaagaacatctttaattctgccttcatttcgttatgtacccagtagtcattcaggagcaggttg
Downstream sequence
ttcagtttccatgtagttgagtggctttgagtgagattcttaatcctgagttctagtttgattgcactgtggtctgagagatagtttgttataatttctg
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