hsa-mir-130b-3p _LIHC.png
CCNA2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000436
Fusion event
AAV2-CCNA2 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2015
PubMed ID
26301494
Virus Sequence
Virus name
AAV2
Reference genome
AF043303.1
Start
4604
End
4389
Orient
-
Integrated sequence
TACCTGACTCGTAATCTGTAATTGCTTGTTAATCAATAAACCGTTTAATTCGTTTCAGTTGAACTTTGGTCTCTGCGTATTTCTTTCTTATCTAGTTTCCATGGCTACGTAGATAAGTAGCATGGCGGGTTAATCATTAACTACAAGGAACCCCTAGTGATGGAGTTGGCCACTCCCTCTCTGCGCGCTCGCTCGCTCACTGAGGCCGGGCGACCA
Host Sequence
Chromosome
chr4
Cytoband
q27
Reference genome
GRCh37/hg19
Start
122742660/121821505 (Hg38)
End
122742667/121821512 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCNA2
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-let-7b-5p ; hsa-mir-146a-5p ; hsa-mir-193b-3p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-98-5p ; hsa-mir-197-3p ; hsa-mir-10b-3p ; hsa-mir-130b-3p ; hsa-mir-27b-3p ; hsa-mir-548aw ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-1825 ; hsa-mir-4676-5p ; hsa-mir-575 ; hsa-mir-548e-5p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-4295 ; hsa-mir-130a-3p ; hsa-mir-301b-3p ; hsa-mir-3666 ; hsa-mir-454-3p ; hsa-mir-301a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-6835-3p ; hsa-mir-29c-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-22-3p
Nearest miRNA
hsa-mir-12113/Upstream/7164651; hsa-mir-1305/Downstream/3685747;
Nearest TSS
ENST00000502981/Upstream/11519; ENST00000567769/Downstream/2420;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/19902, chr4-CpG: 71/Downstream/1890
Upstream sequence
GGATGATACTCTTTGCTTCAAAATAATTTATACTACAAAAAATAAATTATTTATAGTGTTAATCCATTTGCCCATAACAAACCTAATTTCTTAATAACACTTGTTAATAGAGGCCATTTAACTGATGCTAGCTATTGCCTACTTGT
Downstream sequence
GTATGCTTGTGCTTTATATATGTCAGACTCTGGGATCTGCAGTTTCTCTTGGGACAAATCTTAGATATTATCTCAAAACTTGGATTTTAAAAGTGTTCTGTCCTAACAGAACCACCATGCCATTTGCTCCTTTCTGTTGTGGAAGATGGATACTTTAAGATAAT
Junction sequence
GGATGATACTCTTTGCTTCAAAATAATTTATACTACAAAAAATAAATTATTTATAGTGTTAATCCATTTGCCCATAACAAACCTAATTTCTTAATAACACTTGTTAATAGAGGCCATTTAACTGATGCTAGCTATTGCCTACTTGTGCGTTGGTCGCCCGACGCCCGGGCTTTGCCCGGGCGGCCTCAGTGAGCGAGCGAGCGCGCAGAGAGGGAGTGGCCAACTCCATCACTAGGGGTTCCTTAGAGTTAATGATTAACCCGCCATGCTACTTATCTACGTAGCCATGGAAACTAGATAAGAAAGAAGTACACAGAGACCAAAGTTCAACTGAAACGAATTAAACGGTTTATTGATTAACAAGCAATTACAGATTACGAGTCAGGTATGCTTGTGCTTTATATATGTCAGACTCTGGGATCTGCAGTTTCTCTTGGGACAAATCTTAGATATTATCTCAAAACTTGGATTTTAAAAGTGTTCTGTCCTAACAGAACCACCATGCCATTTGCTCCTTTCTGTTGTGGAAGATGGATACTTTAAGATAAT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Nault, J. C., et al. Recurrent AAV2-related insertional mutagenesis in human hepatocellular carcinomas. Nat Genet ,2015,47(10): 1187-1193.
Curate