hsa-mir-548ar-3p _LIHC.png
GRAMD1C _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015888
Fusion event
HBV-GRAMD1C integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22962577
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1827
Orient
+
Host Sequence
Chromosome
chr3
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
113632087/113913240 (Hg38)
End
113632087/113913240 (Hg38)
Orient
+
Location type
Intron
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/318298; hsa-mir-12124/Downstream/403235;
Nearest TSS
ENST00000440867/Upstream/15748; ENST00000471031/Downstream/21247;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/27841, chr3-CpG: 124/Downstream/34272
Upstream sequence
agatggttccgctctcctggtgattcagagagctacctattagtttttaaaataaactcttttttatcctcccatttattcagtcatgattgatttctta
Downstream sequence
TCAgctggatgtggtggcgcgcgcttgtaatcccagcactttggaaggctgagccaggtgggtcaactgaggtcaggagttcgagaccagtctggccaat
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate