SLC44A5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011462
Fusion event
HBV-SLC44A5 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|
Start
1776
Orient
-
Integrated sequence
CAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACT| |AGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCA
Host Sequence
Chromosome
chr1
Cytoband
p31.1
Reference genome
GRCh37/hg19
Start
76124324/75658639 (Hg38)
End
76124324/75658639 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
SLC44A5
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-101-1/Upstream/4590923; hsa-mir-11399/Downstream/1401504;
Nearest TSS
ENST00000473358/Upstream/47523; ENST00000473018/Downstream/65372;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/41959, chr1-CpG: 66/Downstream/65592
Nearby gene
SLC44A5(-47525) ; ACADM(+65719) ;
Upstream sequence
aagaaattaagaaagcaattacaacatttcttgagacaaatgaaaatgaaaatacaacatatcaaaacctaagagataaagcaaaagcagttttaagagg
Downstream sequence
aaagtttataacaataaacacctacatcaaacaagtggaaagttgttaagtaaacaacctaatgatgcacatcaaagaactagaaaagcaagaacaaaca
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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