ITSN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007276
Fusion event
HBV-ITSN1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|Core and e antigen|
Start
1942
Orient
-
Integrated sequence
ATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGG| |AGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCA
Host Sequence
Chromosome
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
35074392/33702087 (Hg38)
End
35074392/33702087 (Hg38)
Orient
+
Location type
Intronic
Target gene
ITSN1
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-194-5p
Nearest miRNA
hsa-let-7c/Upstream/151359; hsa-mir-3197/Downstream/2018628;
Nearest TSS
ENST00000624081/Upstream/58161; ENST00000456489/Downstream/16710;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/58709, chr21-CpG: 36/Downstream/213412
Upstream sequence
aacctggagggcggatgttgcaatgagccaagattgcaccacttcactccagcctgggcgaaagagcgaaactctctctcaaaaaacaaaaaaacaaaca
Downstream sequence
aaaaaatttttttttttttttttttttttttttttttttttttttttagacggagtcttgctccgttgctcaggctggagtgcagtggcactatctcagg
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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