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mmu_circPced1b_478
Basic information of circular RNA
PanCircBase ID:
mmu_circPced1b_478
mm39_Chr. Position ID:
chr15|97175214|97272030|+
Gene name:
Pced1b
Transcript:
ENSMUST00000059433.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2517,83866,96622
Genomic length:
96816
Exon/intron sizes in nt:
83,65,136,194
Flanking exon/introns:
chr15:97145045-97175214|chr15:97272030-97281908
Splice length:
478
Other database IDs:
CIRCpedia: MMU_CIRCpedia_35557, circAtlas: mmu-Pced1b_0003
circAtlas: hsa-PCED1B_0003, CIRCpedia: HSA_CIRCpedia_8507
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGAGAGGCCCTCAGATCCCAGAGGACACCCTACAAGAAGAAGTCAGGATCGTGCTGAAGACCCGGTCTCCAGCAAACATAGGAATGAACAGGAAGGTCGCCTAAAGCCTCCACCCAGAGCCTCGGGTTTGATTCTCGCTAGAAGGGCCGGGATGACTCGGCAATGAGAACGAGGCAACGTGGAGATCACCACCTTTCTCTCCTCTCGCCTTCCTTCCTCTTTCCTTCTCGGCGCCCAGCGATGGAGGGACTGGACAATAGGATCTTCCTTGCACAGACATAGGCCACCGGAAATGGCATCACCTCCCCAGACACTGCCTTGTGAAAGTTGCAGCACCCAGCGCTGAACTTATTTACCCCGAAGACAGAGCCTGGGCCATTCTGATCTACAGCCAGGAAAGGACTCTATCTAGGGAAGGATCTAGAATCAACAGAGAGTCACCTTTTTTAAAAAAGTCACCAGTGGTTTCCATAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTACAGCCAGGAAAGGACTC
58.82
TATGTTTGCTGGAGACCGGG
59.75
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTACAGCCAGGAAAGGACTCT
58.82
TATGTTTGCTGGAGACCGGG
59.75
173
PCR template sequence:
GCCATTCTGATCTACAGCCAGGAAAGGACTCTATCTAGGGAAGGATCTAGAATCAACAGAGAGTCACCTTTTTTAAAAAAGTCACCAGTGGTTTCCATAAGTAATGAGAGGCCCTCAGATCCCAGAGGACACCCTACAAGAAGAAGTCAGGATCGTGCTGAAGACCCGGTCTCCAGCAAACATAGGAATGAACAGGAAGG
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
GTGGTTTCCATAAGTAATGAGAGGCC
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
0.555538558
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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