TRRAP _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014885
Fusion event
HBV-TRRAP integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24582836
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Region type
X / Core
Start
1212
End
1983
Orient
+
Integrated sequence
TTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGG
Host Sequence
Chromosome
chr7
Cytoband
q22.1
Reference genome
GRCh37.p10
Start
98532127/98934504 (Hg38)
End
98532327/98934704 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
TRRAP
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-9-5p ; hsa-mir-30a-5p ; hsa-mir-1301-3p ; hsa-mir-1229-3p ; hsa-mir-760 ; hsa-mir-193b-3p ; hsa-mir-330-3p ; hsa-mir-106b-5p ; hsa-mir-185-5p ; hsa-mir-181b-5p ; hsa-mir-31-5p ; hsa-mir-23a-3p ; hsa-mir-17-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7a-5p
Nearest miRNA
hsa-mir-10525/Upstream/52775; hsa-mir-10399/Downstream/474468;
Nearest TSS
ENST00000635602/Upstream/33824; ENST00000480695/Downstream/35483;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/55173, chr7-CpG: 20/Downstream/18473
Downstream sequence
TGACAGATAATATTTCACCTCTTCCTGAAATGATACAGGAACATTTCAGAACACGCAACTATGTGATCAAAACTCCTCACTGCACTTAAGACCAGAGCCTGGCAGTATTGAGGGCATGAAACTGGTTTTCCAGATGTCTCTCAGTGCCTGGCTGCATCAGAACACGTGCGGATCTTTTGAAAAGCATGGACTCGAGTCCTTTCCTTGGAGATTCAGGTTCAGTCCATTTGGGTGAGACCTGGGAATCCACTGTCTGAA
Target sequence
AAACTCCTCACTGCACTTAAGACCAGAGCCTGGCAGTATTGAGGGCATGAAACTGGTTTTCCAGATGTCTCTCAGTGCCTGGCTGCATCAGAACACGTGCGGATCTTTTGAAAAGCATGGACTCGAGTCCTTTCCTTGGAGATTCAGGTTCAGTCCATTTGGGTGAGACCTGGGAATCCACTGTCTGAAAGCTTCCCAGG
Junction sequence
CTTTGGAGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTTTTCCCTTCTATTCGTGACAGATAATATTTCACCTCTTCCTGAAATGATACAGGAACATTTCAGAACACGCAACTATGTGATCAAAACTCCTCACTGCACTTAAGACCAGAGCCTGGCAGTATTGAGGGCATGAAACTGGTTTTCCAGATGTCTCTCAGTGCCTGGCTGCATCAGAACACGTGCGGATCTTTTGAAAAGCATGGACTCGAGTCCTTTCCTTGGAGATTCAGGTTCAGTCCATTTGGGTGAGACCTGGGAATCCACTGTCTGAA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Lau, C. C., et al. Viral-human chimeric transcript predisposes risk to liver cancer development and progression. Cancer Cell ,2014,25(3): 335-349.
Curate