hsa-mir-130b-3p _LIHC.png
CCNA2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000437
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
3560
End
4596
Orient
+
Integrated sequence
AACCACCACGCAGTCAAGGCTTCAGTTTTCTCAGGCCGGAGCGAGTGACATTCGGGACCAGTCTAGGAACTGGCTTCCTGGACCCTGTTACCGCCAGCAGCGAGTATCAAAGACATCTGCGGATAACAACAACAGTGAATACTCGTGGACTGGAGCTACCAAGTACCACCTCAATGGCAGAGACTCTCTGGTGAATCCGGGCCCGGCCATGGCAAGCCACAAGGACGATGAAGAAAAGTTTTTTCCTCAGAGCGG
Host Sequence
Chromosome
chr4
Cytoband
q27
Reference genome
GRCh37/hg19
Start
122742478/121821301 (Hg38)
End
122742456/121821323 (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/7164447; hsa-mir-1305/Downstream/3685936;
Nearest TSS
ENST00000502981/Upstream/11315; ENST00000567769/Downstream/2609;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/19698, chr4-CpG: 71/Downstream/2079
Upstream sequence
TCTCTTGGGACAAATCTTAGATATTATCTCAAAACTTGGATTTTAAAAGTGTTCTGTCCTAACAGAACCACCATGCCATTTGCTCCTTTCTGTTGTGGAAGATGGATACTTTAAGATAATACCTGATTCTCATTTTCCTGTTAGGGGCC
Downstream sequence
CTCGCTCACTGAGGCCCCCTCATTAACTAAAATCATTCCAAAGTTCTATGTACAGAGATACTGAGACTAGGGTAAAATATTCTACATATTTTGTCATGAGAAGCTCTTTTTAGTTTGAAGAAATAAGTGCTTTGTTAATATGAG
Target sequence
CCAATATGTTTTTTTTTTTTT
Junction sequence
TCTCTTGGGACAAATCTTAGATATTATCTCAAAACTTGGATTTTAAAAGTGTTCTGTCCTAACAGAACCACCATGCCATTTGCTCCTTTCTGTTGTGGAAGATGGATACTTTAAGATAATACCTGATTCTCATTTTCCTGTTAGGGGCCTAGAACCACCACGCAGTCCAGACTTCAGTTTTCTCAGGCCGGAGCAAGTGACATTCGGGACCAGTCTAGGAACTGGCTTCCTGGACCCTGTTACCGCCAGCAGCGAGTATCAAAGACATCTGCGGATAACAACAACAGTGAATACTCGTGGACTGGAGCTACCAAGTACCACCTCAATGGCAGAGACTCTCTGGTGAATCCGGGCCCGGCCATGGCCAGCCACAAGGACGATGAAGAAAAGTTTTTTCCTCAAAGCGGGGTTCTCATCTTTGGAAAACAAGGCTCAGAGAAAACAAATGTGGACATTGAAAAGGTCATGATTACAGACGAAGAGGAAATCAGGACCACCAATCCCGTGGCTACGGAGCAGTATGGTGCTGTATCTACCAACCTCCAGAGCGGCAACACACAAGCAGCTACCTCAGATGTCAACACACAAGGCGTTCTTCCAGGCATGGTCTGGCAGGACAGAGACGTGTACCTGCAGGGGCCCATCTGGGCAAAGATTCCACACACAGACGGACATTTTCACCCCTCTCCCCTCATGGGCGGATTTGGATTAAAGCACCCTCCCCCGCAAATTCTCATTAAGAATACCCCGGTACCTGCAAATCCTTCTACCACTTTCAGCGCGGCAAAGTTTGCTTCTTTCATCACACAGTACTCCACGGGGCAGGTCAGCGTGGAGATCGAGTGGGAGCTGCAGAAGGAGAACAGCAAACGCTGGAATCCCGAGATTCAATACACTTCCAACTACAACAAATCTGTTAATGTGGACTTTACTGTGGACACTAATGGTGTGTATTCAGAGCCTCGCCCCATTGGCACCAGATACCTGACTCGTAATCTGTAATTGCTTGTTAATCAATAAACCGTTTAATTCGTTTCAGTTGAACTTTGGTCTCTGTGTATCTCTTTCTTATCTAGTTTCCATGGCTACGTAGATAAGTACCATGGATGGTTAATCATTAACTATAAGGAACCCCTAGTGATGGAGTTGGCCACTCCCTCTCTGCGCGCTCGCTCGCTCACTGAGGCCCCCTCATTAACTAAAATCATTCCAAAGTTCTATGTACAGAGATACTGAGACTAGGGTAAAATATTCTACATATTTTGTCATGAGAAGCTCTTTTTAGTTTGAAGAAATAAGTGCTTTGTTAATATGAG
* 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