ATRNL1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019243
Fusion event
HBV-ATRNL1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
117316237/115556727 (Hg38)
End
117316237/115556727 (Hg38)
Location type
Intron26
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
ATRNL1
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-379-3p ; hsa-mir-3613-3p ; hsa-mir-3163 ; hsa-mir-577 ; hsa-mir-6771-3p ; hsa-mir-4282 ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-mir-107/Upstream/1382548; hsa-mir-202/Downstream/1270761;
Nearest TSS
ENST00000439456/Upstream/89553; ENST00000449616/Downstream/352624;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/462392, chr10-CpG: 18/Downstream/568575
Upstream sequence
caccacgcctggctaatttttgtatttttagtagagatggggcttcaccatgctggccaggcagctctcaaaatcctgaccttaagtcatctgccagcct
Downstream sequence
CATGTGGAAAATTTGGAGGATTATATTGTTAATTCTCCCAATCAGCAATAGCCCCACCTCTGGTCCCATGTTGCAGTTCCAGACAGAGAATGAATGCTTG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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