SERGEF _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006949
Fusion event
HBV-SERGEF integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25627239
Virus Sequence
Virus name
HBV
Subtype
C2
Reference genome
JQ688404
Region type
Polymerase, X protein
Start
1467
Integrated sequence
CTTTCCATGGCTGCTAGGGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGG| |GGCCGTTTGGGACTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATC
Host Sequence
Chromosome
chr11
Cytoband
p15.4
Reference genome
GRCh37/hg19
Start
7886160/7864613 (Hg38)
End
7886160/7864613 (Hg38)
Location type
Intronic
Target gene
SERGEF
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-382-5p ; hsa-mir-155-5p
Nearest miRNA
hsa-mir-210/Upstream/629776; hsa-let-7a-2/Downstream/1225699;
Nearest TSS
ENST00000527297/Upstream/33773; ENST00000640290/Downstream/18334;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/190159, chr11-CpG: 130/Downstream/154249
Upstream sequence
atagaaaaagagggaatcctccctaactcattttatgaggccagcatcattctgataccaaaacctggcagagacacaacaaaaaaagagaattttagac
Downstream sequence
caatatccttgatgaacattgatgcaaaaatcctcaataaaatactggcaaaacgaatccagcagcacatcaaaaagcttattcaccatgatccagtggg
Reference
Yan, H., et al. Characterization of the genotype and integration patterns of hepatitis B virus in early- and late-onset hepatocellular carcinoma. Hepatology ,2015,61(6): 1821-1831.
Curate