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mmu_circDnajc21_463
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc21_463
mm39_Chr. Position ID:
chr15|10449661|10454943|-
Gene name:
Dnajc21
Transcript:
ENSMUST00000136591.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,9,8,7
Exon/intron offsets:
0,1979,2630,5194
Genomic length:
5282
Exon/intron sizes in nt:
173,43,159,88
Flanking exon/introns:
chr15:10447857-10449661|chr15:10454943-10460040
Splice length:
463
Other database IDs:
circAtlas: mmu-Dnajc21_0010
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGGACAGCGAGGAGGCTGAGGAGGCTGAGCTTTACCAGGACCTTTACTGCCCAGCTTGTGACAAATCCTTCAAGACAGAAAAGGCCATGAAGAATCACGAGAAGTCAAAGAAACATCGGGAAATGGTTGCCTTGTTAAAACAGCAGTTGGAGGAGGAGGAAGAACAGTTTTCAGGAGTTCAAATGGATGAAAATGTATTGAATGCCAATTCTGAGGAGGAAATGGAAGATACACCAAAGCAGAAGCTTTCTAAAAAACAGAAGAAAAAGAAACAGAAATCAGCACAGAATTTTGATGACAATTTCAATGAAAATGGAACTGAAGAAGGAGGAAAGATTGCTCCAGAAAAGACTAAGTCAAATGAAGACAATGCCAAAGAATTAGAAAATAGGCCCCAAGAAAATACCTGTATTACAGAGACCACAGAAGCCTGTGAGGATCCAAAAAGCGAAGCTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCCCAAGAAAATACCTGT
59.28
GGATTTGTCACAAGCTGGGC
59.76
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCCAAGAAAATACCTGT
57.77
GGATTTGTCACAAGCTGGGC
59.76
141
PCR template sequence:
ATGAAGACAATGCCAAAGAATTAGAAAATAGGCCCCAAGAAAATACCTGTATTACAGAGACCACAGAAGCCTGTGAGGATCCAAAAAGCGAAGCTAAAAGGCAAGGACAGCGAGGAGGCTGAGGAGGCTGAGCTTTACCAGGACCTTTACTGCCCAGCTTGTGACAAATCCTTCAAGACAGAAAAGGCCATGAAGAATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-9-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCGAAGCTAAAAGGCAAGGACAGCGA
siRNA sets
CTGTCCTTGCCTTTTAGCT, CCTTGCCTTTTAGCTTCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC21_463_ORF_1
1.1146
0.235869097
0.652497719
396
ORF sequence:
ATGAAGAATCACGAGAAGTCAAAGAAACATCGGGAAATGGTTGCCTTGTTAAAACAGCAGTTGGAGGAGGAGGAAGAACAGTTTTCAGGAGTTCAAATGGATGAAAATGTATTGAATGCCAATTCTGAGGAGGAAATGGAAGATACACCAAAGCAGAAGCTTTCTAAAAAACAGAAGAAAAAGAAACAGAAATCAGCACAGAATTTTGATGACAATTTCAATGAAAATGGAACTGAAGAAGGAGGAAAGATTGCTCCAGAAAAGACTAAGTCAAATGAAGACAATGCCAAAGAATTAGAAAATAGGCCCCAAGAAAATACCTGTATTACAGAGACCACAGAAGCCTGTGAGGATCCAAAAAGCGAAGCTAAAAGGCAAGGACAGCGAGGAGGCTGA
Peptide sequence:
MKNHEKSKKHREMVALLKQQLEEEEEQFSGVQMDENVLNANSEEEMEDTPKQKLSKKQKKKKQKSAQNFDDNFNENGTEEGGKIAPEKTKSNEDNAKELENRPQENTCITETTEACEDPKSEAKRQGQRGG
IRESfinder result
IRESfinder score
0.430206389
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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