ANKRD17 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005200
Fusion event
HBV-ANKRD17 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
1820
Orient
+
Integrated sequence
GTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAA
Host Sequence
Chromosome
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
74108392/73242675 (Hg38)
End
74108392/73242675 (Hg38)
Orient
-
Location type
Intron
Target gene
ANKRD17
miRNAs that regulate target gene
hsa-mir-23b-3p ; hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-424-5p ; hsa-mir-186-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-549a ; hsa-mir-4699-3p ; hsa-mir-582-5p ; hsa-mir-101-3p ; hsa-mir-885-5p ; hsa-mir-6504-3p
Nearest miRNA
hsa-mir-12113/Upstream/6965747; hsa-mir-1243/Downstream/3330893;
Nearest TSS
ENST00000502981/Upstream/19561; ENST00000502790/Downstream/15647;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/172742, chr4-CpG: 62/Downstream/16013
Junction sequence
AGTAGGTATA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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