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mmu_ciPpp2ca_480
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpp2ca_480
mm39_Chr. Position ID:
chr11|52008987|52009467|+
Gene name:
Ppp2ca
Transcript:
ENSMUST00000020608.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
480
Exon/intron sizes in nt:
480
Flanking exon/introns:
chr11:52008987-52009495
Splice length:
480
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTGTACCATAAAACTCACTTCTGGGTTTCTTCCTGTTTCCAATAATTGTTTTCTTGGTGTTTAGCAGGCAGTGATTTTCCATTTGGGGATACATTACTAAATACTGATAAGTTCTTTTCTAGGTGCTGAACTGTCAGGATAAGATCATGGGGTGGAAAATGTAACCTATTCAGCTTTGGGGGCTCTTTGTAGAGGGGTCTGGGAGATGGAAGGCATTGTTTACCAGTGTGAGGGGGACTGTCAGGCTCTGGAGGGACTGTGGGTAAGCTAGAAAAACACTCTTTAGAAGGAACCTCAGGGATGGTGGTTGGTCAGGAACAGGAATAGATACTGTACTCTGTAGTTGGTATTAGGTCGAACAATAGCCAGTTATTCAGGGTCCATCCTCATCGAAACAGAGCCTAGAACTGATGTAGCTAAATGGTGTCAGCTCCTGTCTAATGTGTAGTCCAAAGAGTTCAGTTTCTCTTAGGTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCCATCCTCATCGAAACA
59.79
TCACTGCCTGCTAAACACCA
59.53
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCATCGAAACAGAGCCT
58.44
TCACTGCCTGCTAAACACCA
59.53
171
PCR template sequence:
GGGTCCATCCTCATCGAAACAGAGCCTAGAACTGATGTAGCTAAATGGTGTCAGCTCCTGTCTAATGTGTAGTCCAAAGAGTTCAGTTTCTCTTAGGTGTGTGTGTGTACCATAAAACTCACTTCTGGGTTTCTTCCTGTTTCCAATAATTGTTTTCTTGGTGTTTAGCAGGCAGTGATTTTCCATTTGGGGATACATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-30c-5p(1), mmu-miR-222-3p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTCTTAGGTGTGTGTGTGTACCAT
siRNA sets
TACACACACACACCTAAGA, ACACACACACACCTAAGAG
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
0.794378651
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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