hsa-mir-4753-3p _LIHC.png
PROM1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004996
Fusion event
HBV-PROM1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2649
Orient
+
Integrated sequence
ATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGT| |TCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTT
Host Sequence
Chromosome
chr4
Cytoband
p15.32
Reference genome
GRCh37/hg19
Start
16082796/16081173 (Hg38)
End
16082796/16081173 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA4D
Target gene
PROM1
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-3156-5p ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-200b-5p ; hsa-mir-487b-5p
Nearest miRNA
hsa-mir-12113/Upstream/2453216; hsa-mir-12115/Downstream/4447102;
Nearest TSS
ENST00000502981/Upstream/473; ENST00000513586/Downstream/1435;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/302067, chr4-CpG: 130/Downstream/1399
Upstream sequence
ATGCCTGCATATGAAGAATTtcttaaattgtgatctctgttaacaaactctgagacagaaatttgcatattagagttttgctgggaagtgcccttaggag
Downstream sequence
atttacattaggtatatgtcctaatgctatccctccccactcccgccacctgacaacaggccccggtgtgtgatgttccccttcctgtgtccaagtgttt
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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