RBPMS2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018711
Fusion event
HBV-RBPMS2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1786
Integrated sequence
AACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGT| |AGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCT
Host Sequence
Chromosome
chr15
Cytoband
q22.31
Reference genome
GRCh37.55
Start
65040537/64748338 (Hg38)
End
65040537/64748338 (Hg38)
Location type
Intron2
Fragile sites / regions
FRA15A
Target gene
RBPMS2
miRNAs that regulate target gene
hsa-mir-23b-3p
Nearest miRNA
hsa-mir-10393/Upstream/877319; hsa-mir-11181/Downstream/14049;
Nearest TSS
ENST00000557528/Upstream/45057; ENST00000616065/Downstream/12879;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/44841, chr15-CpG: 159/Downstream/26379
Upstream sequence
atctgaatcccttattttactagtttacactatggtgatttttctattttgttcattccttctacatttattTACTGATTTTCCTCTTTCCCCCCTCATA
Downstream sequence
GGCCAAGTGGCCAGGCACATGCAAAGTCTGGCCAGCTAAGAGCCCTTGTTCTTCGCCCTCCCCAACCTTAAAGGGCTTACCTGAGCGTGGAGGGCGGCGG
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.
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