HACL1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008148
Fusion event
HBV-HACL1 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
1755
Orient
-
Integrated sequence
ATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGAT| |TAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCAT
Host Sequence
Chromosome
chr3
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
15601587/15560080 (Hg38)
End
15601587/15560080 (Hg38)
Orient
+
Location type
downstream
Target gene
HACL1
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-204-5p
Nearest miRNA
hsa-mir-12127/Upstream/63772; hsa-let-7g/Downstream/137218;
Nearest TSS
ENST00000440867/Upstream/38329; ENST00000480711/Downstream/41105;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/132155, chr3-CpG: 70/Downstream/41183
Upstream sequence
ccaaaggcaccagggccctcagtggggaatgtatccagcctatactgcttatcctcatccccaaaccctaaagcaactaagagggttccttggcataaca
Downstream sequence
tagattccctttttgtttttgttttttttttgagacggagttttgctcttgttgcccaggctggagtgcagtggtgcaatctcggctcaccacaacctcc
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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