SLC35F1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019314
Fusion event
HBV-SLC35F1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr6
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
118256971/117935808 (Hg38)
End
118256976/117935813 (Hg38)
Location type
Intron1
Target gene
SLC35F1
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-1257 ; hsa-mir-3650 ; hsa-mir-4722-5p ; hsa-mir-1827 ; hsa-mir-4790-3p ; hsa-mir-4649-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-665 ; hsa-mir-7160-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929
Nearest miRNA
hsa-mir-10398/Upstream/11151588; hsa-mir-1202/Downstream/1133234;
Nearest TSS
ENST00000381078/Upstream/28282; ENST00000621341/Downstream/218629;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/15402, chr6-CpG: 121/Downstream/714686
Upstream sequence
TGGGTTTTGAGTACTCTGTGGGCAGGTCTTGAGCTGGCAATGGGAGCCACTTAGATAAGAAATTGTACAAAGTTACAGCACATTTTTATATTGCTCGCTG
Downstream sequence
tcaaattttttgccactctagatgtatgtctgtgaatgatcatgaaagtggcaagagtattgaaatggggttataaataagttttagcaagtaagcaact
Target sequence
gtgac
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate