NRG2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004689
Fusion event
HBV-NRG2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2476
Orient
-
Integrated sequence
AACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGG| |AAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAAT
Host Sequence
Chromosome
chr5
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
139347517/139967932 (Hg38)
End
139347517/139967932 (Hg38)
Orient
+
Location type
Intron
Target gene
NRG2
miRNAs that regulate target gene
hsa-mir-5089-5p ; hsa-mir-377-3p ; hsa-mir-4769-5p ; hsa-mir-4654 ; hsa-mir-8485 ; hsa-mir-136-5p ; hsa-mir-4297 ; hsa-mir-4724-5p ; hsa-mir-515-5p ; hsa-mir-519e-5p ; hsa-mir-5581-5p ; hsa-mir-6516-3p ; hsa-mir-96-3p ; hsa-mir-2861 ; hsa-mir-5001-3p ; hsa-mir-7851-3p ; hsa-mir-939-3p
Nearest miRNA
hsa-mir-10397/Upstream/2320283; hsa-mir-103a-1/Downstream/595739;
Nearest TSS
ENST00000502646/Upstream/63535; ENST00000502351/Downstream/75137;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/63235, chr5-CpG: 74/Downstream/74559
Upstream sequence
CAGAAAAGGCAAGTGTGTGGCTACTAGATATCAACGCAAAGGATTACAACCAGAGAAATATAATGTATAAGAAAATTGGAAAGGATCACAGAGCTGACTA
Downstream sequence
tgggcaacagagctagactctgtcccaaaaaataaaaCATAAaaataaataaataaataaataaataaataaataaataaatGGAGAACAGGACTGCATG
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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