hsa-mir-4434 _LIHC.png
SND1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000453
Fusion event
HBV-SND1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr7
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
127721392/128081340 (Hg38)
End
127721392/128081340 (Hg38)
Location type
Intronic
Target gene
SND1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-93-5p ; hsa-mir-16-5p ; hsa-mir-361-5p ; hsa-mir-6878-5p ; hsa-mir-198 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-6770-5p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-6760-5p ; hsa-mir-4270 ; hsa-mir-6756-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5009-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-184
Nearest miRNA
hsa-mir-10525/Upstream/1023156; hsa-mir-10399/Downstream/521;
Nearest TSS
ENST00000635602/Upstream/39038; ENST00000485871/Downstream/5131;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/48540, chr7-CpG: 46/Downstream/22802
Downstream sequence
TCTGCCGACTGAACATGCAGG
Junction sequence
GGGTTCTTTCCTTCGATATTGAGAGAAGTCCACCACGAGTCTAGACTCCTGTGGTATTAGTGAGGATTCTTGTCAACAAGAAAAACCCCGCCTGTAACACGAGGAGGGGTCTGCCGACTGAACATGCAGG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate