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mmu_ciDdx6_1293
Basic information of circular RNA
PanCircBase ID:
mmu_ciDdx6_1293
mm39_Chr. Position ID:
chr9|44524188|44525481|+
Gene name:
Ddx6
Transcript:
ENSMUST00000170489.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1293
Exon/intron sizes in nt:
1293
Flanking exon/introns:
chr9:44524188-44525508
Splice length:
1293
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTGGGGTATAGATTTCAAATGGAAGAACTGAACAATTACCAGTAAAGAATTGTGTGAAATGACGCTGCATGTGTCGGCTTTTGTTTTATTTTGAGATAATATCTTATATAGTCCAGGGTTACTACACACTCTAGGTTCTCCTTCCATAGCCTCATTAGTGCTGGGAGTATAGTTAGGTGTGTGCTATCAGGCTAGCACATAGGTTTTTATTTTTATTTTTTTATTTTTTTTAGAAACATTTTCTTTTACAGATTTATTTATTTATTACATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCATTACGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTTTGGACCTTTGGAAAAGCAGTCAGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCAGGTTTTTATTTTTGAGCAGATAGGGTTTCACTATTTAGCTGAGGCTCTGTGTATTGAAATAGTTGAAACTGTATAGTTAATAGATACTGGGTTGCCAAAATTTTACTAACAGTCTTTGGTGGGATTACATAGTAGGGGTAACATATTAAGTAATGTGTGTGTGTGTGCATGCATATCTTGGTTATTTTGTTTTCTTTTTCCAGACAGGGTTTTCCTGTGTAGCCCTGGTTGTCCTGAAACTAGCTCTGTAGACCAGGCTGACTTGGAACACACAGAGATCCACCTGCCTCTCTGCCTCTGCCTTCAGCCTAGCTGCATATCATAACCTTATTTTCTCAATTTTTCTCAGCCTTTCAGGGAGATATACAGGCTAGGTATTATAACTACTATGTATGAGTATGTAAGAACAGAAGTTCTTTTATTTCAATATCCTCAACCAAGGGTGACTTTTTTTTCCTTTTTTTTTTGGTGACCAAGGGAACATTAAATAATAGCTAGAGATCCTTATAGAGTAGCCTCAAATCAGTGATCTGACCACAGATGTCAAAGCAGTGTGCTTGAGAAACCTGAACGTCGCAGAGATGTTGGTAGCTGTGAGTGGGGAGAACTTGGGCTTGATTTTACATCTTGTAACTAATTGAATGTTATTTATGTAGAAATACTCTAACTAGACTATGGTCATATGTGGTTTTGCCTAAAGTTCCATTTTTAAAGTAGTGTTTATTTGTTGAAGGTAGAGTAGTTATTCCTCAGGGCAGTTTAAATAGGGATTAAAGCAGTAGTAGTAAAGTGTGTGTTTAGACTGAAGTGGGGAAAGAGCTCAGCCTGTCAGGGTGCTTTTTAAGCACGCTAACTGTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGGGGAAAGAGCTCAGC
59.96
ACAAAAGCCGACACATGCAG
59.69
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGAGCTCAGCCTGTCA
59.68
ACAAAAGCCGACACATGCAG
59.69
140
PCR template sequence:
AATAGGGATTAAAGCAGTAGTAGTAAAGTGTGTGTTTAGACTGAAGTGGGGAAAGAGCTCAGCCTGTCAGGGTGCTTTTTAAGCACGCTAACTGTAAAAGGTAAGTTGGGGTATAGATTTCAAATGGAAGAACTGAACAATTACCAGTAAAGAATTGTGTGAAATGACGCTGCATGTGTCGGCTTTTGTTTTATTTTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-709(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-351-5p(1), mmu-miR-224-5p(1), mmu-miR-369-3p(1), mmu-miR-3065-5p(1), mmu-miR-466b-3p(1), mmu-miR-670-5p(1), mmu-miR-99a-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTAACTGTAAAAGGTAAGTTGGGGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.910952897
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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