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mmu_circPpp1r21_318
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_318
mm39_Chr. Position ID:
chr17|88850272|88855097|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,2476,4723
Genomic length:
4825
Exon/intron sizes in nt:
69,147,102
Flanking exon/introns:
chr17:88837746-88850272|chr17:88855097-88856921
Splice length:
318
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217558, circAtlas: mmu-Ppp1r21_0002
CIRCpedia: HSA_CIRCpedia_368655
Human Ortholog IDs:
Mature spliced Sequence:
CTTCGAGCTCAGAATCAGGTTCTGAAGAAAGGTGTTGTGGATGAGCAGGCCAGCTCTGCTGCTCTGAAGGAACAACTGAAAATGAAGGACCAGTCCTTGAGGAAACTGCAGCAGGAAATGGACAGTTTGACATTTCGAAATCTGCAGCTTGCCAAGAGGGTGGAACTCCTTCAAGATGAGCTAGCACTAAGTGAACCTCGAGGCAAGAAAAACAAGAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGAGCAGAAGAGCGTCT
59.75
TTCCTTCAGAGCAGCAGAGC
60.04
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGAGCAGAAGAGCGTCT
59.75
TGTTCCTTCAGAGCAGCAGAG
60
147
PCR template sequence:
AAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGCTTCGAGCTCAGAATCAGGTTCTGAAGAAAGGTGTTGTGGATGAGCAGGCCAGCTCTGCTGCTCTGAAGGAACAACTGAAAATGAAGGACCAGTCCTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGCACATACAGCTTCGAGCTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_318_ORF_1
1.2637
0.418348113
0.943083108
555
ORF sequence:
ATGAAGGACCAGTCCTTGAGGAAACTGCAGCAGGAAATGGACAGTTTGACATTTCGAAATCTGCAGCTTGCCAAGAGGGTGGAACTCCTTCAAGATGAGCTAGCACTAAGTGAACCTCGAGGCAAGAAAAACAAGAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGCTTCGAGCTCAGAATCAGGTTCTGAAGAAAGGTGTTGTGGATGAGCAGGCCAGCTCTGCTGCTCTGAAGGAACAACTGAAAATGAAGGACCAGTCCTTGAGGAAACTGCAGCAGGAAATGGACAGTTTGACATTTCGAAATCTGCAGCTTGCCAAGAGGGTGGAACTCCTTCAAGATGAGCTAGCACTAAGTGAACCTCGAGGCAAGAAAAACAAGAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAG
Peptide sequence:
MKDQSLRKLQQEMDSLTFRNLQLAKRVELLQDELALSEPRGKKNKKSGESSSQLSQEQKSVFDEDLQKKIEENERLHIQLRAQNQVLKKGVVDEQASSAALKEQLKMKDQSLRKLQQEMDSLTFRNLQLAKRVELLQDELALSEPRGKKNKKSGESSSQLSQEQKSVFDEDLQKKIEENERLHIQ
IRESfinder result
IRESfinder score
0.414640065
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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