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mmu_circCdc42bpa_479
Basic information of circular RNA
PanCircBase ID:
mmu_circCdc42bpa_479
mm39_Chr. Position ID:
chr1|179928589|179936843|+
Gene name:
Cdc42bpa
Transcript:
ENSMUST00000097453.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,16,17
Exon/intron offsets:
0,5022,8129
Genomic length:
8254
Exon/intron sizes in nt:
24,81,06,125
Flanking exon/introns:
chr1:179922056-179928589|chr1:179936843-179938828
Splice length:
479
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225272, circAtlas: mmu-Cdc42bpa_0048
CIRCpedia: HSA_CIRCpedia_368285
Human Ortholog IDs:
Mature spliced Sequence:
CAAAAACAAATTAGTTACTCACCAGGAATATGCAGCATAGAACATCAGCAAGAGATAACTAAACTGAAAACTGACTTGGAAAAGAAAAGTATCTTTTATGAAGAAGAAATTTCTAAAAGAGAAGGAATTCACGCAAGTGAGATTAAAAACCTGAAGAAGGAGCTGCATGACTCAGAAGGCCAGCAGCTTGCTCTCAACAAAGAGATTCTGGTTTTAAAAGACAAATTGGAAAAAACCAGGAGAGAAAGTCAAAGTGAAAGGGAAGAATTTGAAAATGAGTTCAAACAACAATATGAACGGGAAAAAGTATTATTAACTGAAGAGAATAAAAAGTTAACGAGTGAACTCGATAAGCTGACTTCACTGTATGAGAGCTTAAGTTTGCGCAACCAGCACTTAGAAGAAGAAGTCAAAGATCTAGCAGATAAGAAGGAATCAGTTGCCCACTGGGAAGCCCAAATCACAGAGATAATTCAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTTGCGCAACCAGCACTTA
59.97
TGCTGATGTTCTATGCTGCA
57.59
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCAACCAGCACTTAGAAG
59.83
TGCTGATGTTCTATGCTGCA
57.59
146
PCR template sequence:
GTTTGCGCAACCAGCACTTAGAAGAAGAAGTCAAAGATCTAGCAGATAAGAAGGAATCAGTTGCCCACTGGGAAGCCCAAATCACAGAGATAATTCAGTGCAAAAACAAATTAGTTACTCACCAGGAATATGCAGCATAGAACATCAGCAAGAGATAACTAAACTGAAAACTGACTTGGAAAAGAAAAGTATCTTTTATG
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-93-5p(1), mmu-miR-223-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATAATTCAGTGCAAAAACAAATTA
siRNA sets
TAATTTGTTTTTGCACTGA, GTTTTTGCACTGAATTATC, AATTTGTTTTTGCACTGAA
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
0.680151037
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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