hsa-mir-4753-3p _LIHC.png
PTPRM _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014254
Fusion event
HBV-PTPRM 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
Polymerase|large S protein|middle S protein|
Start
5
Orient
+
Integrated sequence
AATTC| |CACAACCTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACT
Host Sequence
Chromosome
chr18
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
8060728/8060730 (Hg38)
End
8060728/8060730 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPRM
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-205-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-580-3p ; hsa-mir-4753-3p ; hsa-mir-452-3p ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-1279 ; hsa-mir-130b-5p ; hsa-mir-4461 ; hsa-mir-1264
Nearest miRNA
hsa-mir-3976/Upstream/1686305; hsa-mir-1-2/Downstream/2698854;
Nearest TSS
ENST00000575820/Upstream/11366; ENST00000583289/Downstream/24972;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/491898, chr18-CpG: 38/Downstream/306545
Upstream sequence
gtcccagagattctggtatgttgtgtctttgttctcgttggtttcaaagaacatctttatttctgccttcatttcgttatgtacccagtagtcattcagg
Downstream sequence
agcaggttgttcagtttccatgtagttgagtggctttgagtgagattcttaatcctgagttctagtttgattgcactgtggtctgagagatagtttgtta
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.
Curate