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mmu_circPdia3_267
Basic information of circular RNA
PanCircBase ID:
mmu_circPdia3_267
mm39_Chr. Position ID:
chr2|121265269|121266895|+
Gene name:
Pdia3
Transcript:
ENSMUST00000028683.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,1132,1568
Genomic length:
1626
Exon/intron sizes in nt:
129,80,58
Flanking exon/introns:
chr2:121264574-121265269|chr2:121266895-121268066
Splice length:
267
Other database IDs:
CIRCpedia: HSA_CIRCpedia_14499
Human Ortholog IDs:
Mature spliced Sequence:
GTTGTGGTAGCAGAGAATTTTGATGACATAGTGAATGAAGAAGATAAGGACGTGCTGATTGAATTTTACGCCCCTTGGTGTGGCCACTGTAAGAATCTGGAACCCAAGTATAAAGAGCTGGGAGAAAAACTCAGCAAAGATCCAAATATTGTCATAGCCAAGATGGATGCCACAGCCAATGATGTGCCTTCTCCATATGAAGTCAAGGGTTTTCCTACCATCTACTTCTCACCAGCCAACAAGAAGCTAACTCCAAAGAAGTATGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAATGATGTGCCTTCTCC
59.26
CCACACCAAGGGGCGTAAAA
60.82
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAATGATGTGCCTTCTCC
59.26
CCACACCAAGGGGCGTAAA
60.23
176
PCR template sequence:
TGCCACAGCCAATGATGTGCCTTCTCCATATGAAGTCAAGGGTTTTCCTACCATCTACTTCTCACCAGCCAACAAGAAGCTAACTCCAAAGAAGTATGAAGTTGTGGTAGCAGAGAATTTTGATGACATAGTGAATGAAGAAGATAAGGACGTGCTGATTGAATTTTACGCCCCTTGGTGTGGCCACTGTAAGAATCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAAGTATGAAGTTGTGGTAGCAG
siRNA sets
TACCACAACTTCATACTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDIA3_267_ORF_1
1.1654
0.397343765
0.772181196
372
ORF sequence:
ATGGATGCCACAGCCAATGATGTGCCTTCTCCATATGAAGTCAAGGGTTTTCCTACCATCTACTTCTCACCAGCCAACAAGAAGCTAACTCCAAAGAAGTATGAAGTTGTGGTAGCAGAGAATTTTGATGACATAGTGAATGAAGAAGATAAGGACGTGCTGATTGAATTTTACGCCCCTTGGTGTGGCCACTGTAAGAATCTGGAACCCAAGTATAAAGAGCTGGGAGAAAAACTCAGCAAAGATCCAAATATTGTCATAGCCAAGATGGATGCCACAGCCAATGATGTGCCTTCTCCATATGAAGTCAAGGGTTTTCCTACCATCTACTTCTCACCAGCCAACAAGAAGCTAACTCCAAAGAAGTATGAA
Peptide sequence:
MDATANDVPSPYEVKGFPTIYFSPANKKLTPKKYEVVVAENFDDIVNEEDKDVLIEFYAPWCGHCKNLEPKYKELGEKLSKDPNIVIAKMDATANDVPSPYEVKGFPTIYFSPANKKLTPKKYE
IRESfinder result
IRESfinder score
0.349648068
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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