TMEM116 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017786
Fusion event
HBV-TMEM116 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
X protein;
Start
1803
Integrated sequence
TACTTCAAAGACTGTGTATTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTT| |CACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATG
Host Sequence
Chromosome
chr12
Cytoband
q24.13
Reference genome
GRCh37/hg19
Start
112368233/111930429 (Hg38)
End
112368233/111930429 (Hg38)
Location type
downstream
Fragile sites / regions
FRA12E
Target gene
TMEM116
miRNAs that regulate target gene
hsa-mir-127-5p
Nearest miRNA
hsa-let-7i/Upstream/130524; hsa-mir-1178/Downstream/107170;
Nearest TSS
ENST00000382841/Upstream/41196; ENST00000553161/Downstream/75556;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/87519, chr12-CpG: 94/Downstream/82672
Nearby gene
TMEM116 ;
Upstream sequence
agagtaaaaactattctaaagctggtaagtatcattctgtccatacttttacacttttataacatacatatatatGTGTGTATACATATTTATGTGTTGT
Downstream sequence
CTGTACATGCatatgtatatatgtatatactcatataatatgtatatatgtatatgtatatatgtatatactcatataatatgtatatatgtatatactc
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.
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