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mmu_circCacna2d1_79
Basic information of circular RNA
PanCircBase ID:
mmu_circCacna2d1_79
mm39_Chr. Position ID:
chr5|16517498|16517577|+
Gene name:
Cacna2d1
Transcript:
ENSMUST00000167946.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
79
Exon/intron sizes in nt:
79
Flanking exon/introns:
chr5:16507395-16517498|chr5:16517577-16518639
Splice length:
79
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACCTATTCAGTGGATGGCT
59.23
TGTTGACCGACGGAAAATGT
58.04
66
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCTATTCAGTGGATGGC
59.23
TGTTGACCGACGGAAAATGT
58.04
67
PCR template sequence:
ACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAGGTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-30d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGAAAATAAAGGTCCGTGTGTTTA
siRNA sets
TAAACACACGGACCTTTAT, ACACGGACCTTTATTTTCA, AAACACACGGACCTTTATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCACNA2D1_79_ORF_1
0.6343
-0.092153519
0.027170412
120
ORF sequence:
ATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAGGTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAA
Peptide sequence:
MTEDLFSGWLVKIKVRVFTFSVGQHNYDRGPIQWMACENK
IRESfinder result
IRESfinder score
0.321916415
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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