SLC35F1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018972
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
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr6
Cytoband
q22.31
Reference genome
GRCh37.55
Start
118636153/118314990 (Hg38)
End
118636186/118315023 (Hg38)
Location type
Exon8
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/11530770; hsa-mir-1202/Downstream/754024;
Nearest TSS
ENST00000381078/Upstream/160548; ENST00000357525/Downstream/233275;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/394584, chr6-CpG: 121/Downstream/335476
Upstream sequence
ACTTTGTATATGACTTCCTTATTCCTGCATTCTATTTAATGTCATATTTTTTCAAGACAGCCATCTAGTGGCAAATAAGAGAAATGAAGGATCCCAAGTA
Downstream sequence
TGGGAGCCCCCAGAAATAATATCATTTGTGTTTAGGACAATATATAATTATAAAATCTTTCTGCTCCTCCCTGTAGCCTCTCTTCAAAAACTATCTTTTA
Target sequence
ACAGGATAAGGACTGTTCCATTACTGTGGCTTT
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate