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mmu_ciPpp4r3a_461
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpp4r3a_461
mm39_Chr. Position ID:
chr12|101019265|101019726|-
Gene name:
Ppp4r3a
Transcript:
ENSMUST00000048305.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
461
Exon/intron sizes in nt:
461
Flanking exon/introns:
chr12:101017921-101019726
Splice length:
461
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAGAAGTTAACAGAGCAAAAAATAACCAGCAAGGTAAATATTATTTACACTAATAGTAAGTATTTATGCATAGGAGGCTATCGCTGGGGTTATGTATTTCTAAACTACTTTTGGGGAACAGGTAGTCATAATGCCAGATAGTGCATTCTTCCCCTTGGTTTCCTCTGCCTTAGTTTATAAATTTATTTATTATATTTGACTTCAACTTTTTTAATTGTGAAGTTGACTTGGCTATAATGTTTTATTTAAACCCTTAAATCAATTGACCATTCTGAATGTGGGACTATGAGTAACTTTCATTGGAAAGCACTACCAGAGGTGGATTCTCAGAATAAACTGGATGAAAGAGATAAAATATGGCTCCTGAAAAGTATTAGGGAAGAATAAGAACAAGCTATTGCCTGTATGCTGCGGCTGTATTTAATCAGAGATTAGAATCGGTGAATTGGCTTTAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATTGCCTGTATGCTGCG
59.76
CGATAGCCTCCTATGCATAAA
55.06
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTATGCTGCGGCTGTAT
60.25
CGATAGCCTCCTATGCATAAA
55.06
144
PCR template sequence:
TATGGCTCCTGAAAAGTATTAGGGAAGAATAAGAACAAGCTATTGCCTGTATGCTGCGGCTGTATTTAATCAGAGATTAGAATCGGTGAATTGGCTTTAAGTAAGTAAGAAGTTAACAGAGCAAAAAATAACCAGCAAGGTAAATATTATTTACACTAATAGTAAGTATTTATGCATAGGAGGCTATCGCTGGGGTTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-miR-181b-5p(1), mmu-miR-107-3p(1), mmu-miR-129-5p(1), mmu-miR-188-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATTGGCTTTAAGTAAGTAAGAAGT
siRNA sets
CTTCTTACTTACTTAAAGC, TCTTACTTACTTAAAGCCA, TTACTTACTTAAAGCCAAT
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
0.831567507
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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