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mmu_circPced1b_330
Basic information of circular RNA
PanCircBase ID:
mmu_circPced1b_330
mm39_Chr. Position ID:
chr15|97259080|97272030|+
Gene name:
Pced1b
Transcript:
ENSMUST00000059433.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,12756
Genomic length:
12950
Exon/intron sizes in nt:
136,194
Flanking exon/introns:
chr15:97177796-97259080|chr15:97272030-97281908
Splice length:
330
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219101, circAtlas: mmu-Pced1b_0006
Human Ortholog IDs:
Mature spliced Sequence:
GGCCGGGATGACTCGGCAATGAGAACGAGGCAACGTGGAGATCACCACCTTTCTCTCCTCTCGCCTTCCTTCCTCTTTCCTTCTCGGCGCCCAGCGATGGAGGGACTGGACAATAGGATCTTCCTTGCACAGACATAGGCCACCGGAAATGGCATCACCTCCCCAGACACTGCCTTGTGAAAGTTGCAGCACCCAGCGCTGAACTTATTTACCCCGAAGACAGAGCCTGGGCCATTCTGATCTACAGCCAGGAAAGGACTCTATCTAGGGAAGGATCTAGAATCAACAGAGAGTCACCTTTTTTAAAAAAGTCACCAGTGGTTTCCATAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTACAGCCAGGAAAGGACTC
58.82
AGGCGAGAGGAGAGAAAGGT
59.96
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTACAGCCAGGAAAGGACTCT
58.82
AGGCGAGAGGAGAGAAAGGT
59.96
155
PCR template sequence:
GCCATTCTGATCTACAGCCAGGAAAGGACTCTATCTAGGGAAGGATCTAGAATCAACAGAGAGTCACCTTTTTTAAAAAAGTCACCAGTGGTTTCCATAAGGCCGGGATGACTCGGCAATGAGAACGAGGCAACGTGGAGATCACCACCTTTCTCTCCTCTCGCCTTCCTTCCTCTTTCCTTCTCGGCGCCCAGCGATGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-185-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGTTTCCATAAGGCCGGGATGACT
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
0.604630077
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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