hsa-mir-548ar-3p _LIHC.png
GRAMD1C _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019287
Fusion event
HBV-GRAMD1C integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr3
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
113566435/113847588 (Hg38)
End
113566435/113847588 (Hg38)
Location type
Intron2
Target gene
GRAMD1C
miRNAs that regulate target gene
hsa-mir-4682 ; hsa-mir-4424 ; hsa-mir-5582-3p ; hsa-mir-3200-5p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p
Nearest miRNA
hsa-let-7g/Upstream/252646; hsa-mir-12124/Downstream/468887;
Nearest TSS
ENST00000440867/Upstream/3085; ENST00000488680/Downstream/43037;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/8635, chr3-CpG: 34/Downstream/37428
Upstream sequence
agccaggcacagaaagacaaatatcgcatgttctcactcatacatgatagcttaaaaaattgatctcatggaggtagcgagtagaatgatgattaccaga
Downstream sequence
CTAGCATGTTGCTGTTGTTTTCTTCATTCTCCCCCAAATAAAGTAGGTATTGAAGAAAAACAAATATGATGGGGAATTCACTGAGGGGTCTAAAATTAAC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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