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mmu_circCep250_426
Basic information of circular RNA
PanCircBase ID:
mmu_circCep250_426
mm39_Chr. Position ID:
chr2|155836490|155838254|+
Gene name:
Cep250
Transcript:
ENSMUST00000039994.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
29,30,31,32
Exon/intron offsets:
0,274,748,1701
Genomic length:
1764
Exon/intron sizes in nt:
114,147,102,63
Flanking exon/introns:
chr2:155834694-155836490|chr2:155838254-155840087
Splice length:
426
Other database IDs:
circAtlas: mmu-Cep250_0006
CIRCpedia: HSA_CIRCpedia_95766
Human Ortholog IDs:
Mature spliced Sequence:
GAGGAGTTGGTACTCAGCAGACAAGCTCTGGAAGAGCAGCAGTCAGGTGGCCCACACTCAACCAGCAGAGCAGACCAGGGACCAAAAGTGGGACAGGGAAGCCAGTCTGGAGAGGTAGAGACTGAGCCTAGTCCTGGAGTGGAGGAGAAGGAACGGTTGACACAGAGGCTTGAACGTCTGCAGCAAGCGGTGGCAGAGCTGGAAGTTGACCGAAGCAAGCTGCAGTGCCACAATGCGCAGCTGCGGACCGCCTTGGAGCAGGTGGAACGAGAACGGAGGAAGCTGAAGAGGGATTCCGTGCGTGCATCCCGGGCAGGATCACTGGAGGCCAGAGAAACTATGACTTCATCCCCCACACAGCAGGATGGGAGAGGCAGTCAGAGGGGTTCCTCGGACAGCGTGCTTGTGGTTGAGCTTCAGAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACACAGCAGGATGGGAGAG
60.11
TCTGCTCTGCTGGTTGAGTG
59.97
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACAGCAGGATGGGAGAG
60.11
GTCTGCTCTGCTGGTTGAGT
59.97
148
PCR template sequence:
GGCCAGAGAAACTATGACTTCATCCCCCACACAGCAGGATGGGAGAGGCAGTCAGAGGGGTTCCTCGGACAGCGTGCTTGTGGTTGAGCTTCAGAGAGAGGAGGAGTTGGTACTCAGCAGACAAGCTCTGGAAGAGCAGCAGTCAGGTGGCCCACACTCAACCAGCAGAGCAGACCAGGGACCAAAAGTGGGACAGGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-452-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCAGAGAGAGGAGGAGTTGGTAC
siRNA sets
TACCAACTCCTCCTCTCTC, GTACCAACTCCTCCTCTCT, CAACTCCTCCTCTCTCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP250_426_ORF_1
0.9966
0.326394222
0.835722619
513
ORF sequence:
ATGACTTCATCCCCCACACAGCAGGATGGGAGAGGCAGTCAGAGGGGTTCCTCGGACAGCGTGCTTGTGGTTGAGCTTCAGAGAGAGGAGGAGTTGGTACTCAGCAGACAAGCTCTGGAAGAGCAGCAGTCAGGTGGCCCACACTCAACCAGCAGAGCAGACCAGGGACCAAAAGTGGGACAGGGAAGCCAGTCTGGAGAGGTAGAGACTGAGCCTAGTCCTGGAGTGGAGGAGAAGGAACGGTTGACACAGAGGCTTGAACGTCTGCAGCAAGCGGTGGCAGAGCTGGAAGTTGACCGAAGCAAGCTGCAGTGCCACAATGCGCAGCTGCGGACCGCCTTGGAGCAGGTGGAACGAGAACGGAGGAAGCTGAAGAGGGATTCCGTGCGTGCATCCCGGGCAGGATCACTGGAGGCCAGAGAAACTATGACTTCATCCCCCACACAGCAGGATGGGAGAGGCAGTCAGAGGGGTTCCTCGGACAGCGTGCTTGTGGTTGAGCTTCAGAGAGAG
Peptide sequence:
MTSSPTQQDGRGSQRGSSDSVLVVELQREEELVLSRQALEEQQSGGPHSTSRADQGPKVGQGSQSGEVETEPSPGVEEKERLTQRLERLQQAVAELEVDRSKLQCHNAQLRTALEQVERERRKLKRDSVRASRAGSLEARETMTSSPTQQDGRGSQRGSSDSVLVVELQRE
IRESfinder result
IRESfinder score
0.321355508
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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