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mmu_circCc2d2a_688
Basic information of circular RNA
PanCircBase ID:
mmu_circCc2d2a_688
mm39_Chr. Position ID:
chr5|43881042|43889809|+
Gene name:
Cc2d2a
Transcript:
ENSMUST00000048150.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
29,30,31,32,33,34
Exon/intron offsets:
0,573,2495,4570,6156,8677
Genomic length:
8767
Exon/intron sizes in nt:
97,99,177,21,204,90
Flanking exon/introns:
chr5:43879840-43881042|chr5:43889809-43891169
Splice length:
688
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCCCCCAATGGGGACTACAGCACAGCCAGCTTACAGTCAGTGAAGGATGACGTATACATTAACATTTTTGATGAAGTGCTGTATGATATCCTAGAGGATGACCGTGAAAGAGGAAGTGGGATCCATACGCGTATTGAGAGACACTGGTTAGGATGTGTGAAAATCCCATTTAGCACCATCTATTTCCAGGCAAGGATTGATGGCACATTTAAAATAGACATTCCTCCAGTTCTCCTGGGCTATAGTAAGGAGCGAAACATTATTATGGAACGAGCCTTTGATTCTGCCCGAAGCTTGAGTGAAGGCTCCTACATCACCCTGTTTATTACCATTGAGCCTCAGCTGGTTCCTGGGGAGCCTATGAGAGAAAAGATGAGTGACATGCTTAAGAAGTTTGATACCCAGGAAGATGAGAAATTACTTCAAGCAACAGAGAAATTTCAAGCTGAATGTGCCTTAAAATTCCCCCAGCGTCAGTGCCTCACCACAGTGACTGACATGACCGGGAAAACGGTTTTTATTACGCGTTATCTCAAGCCTTTAAACCCTCCGCAGGAGCTCCTTCACGTCTACCCCAACAACCCGCAGGCCACTGCGGAGCTGGTAGCTCGGTATGTGTCCTTGATCCCTTTCTTGCCTGATAGCGTGTCGTTTGCTGGAGTCTGTGACCTGTGGAGCACTTCTGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGTAGCTCGGTATGTGT
59.54
ACGTCATCCTTCACTGACTGT
59.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGTAGCTCGGTATGTGTCC
59.93
ACGTCATCCTTCACTGACTGT
59.04
141
PCR template sequence:
GGCCACTGCGGAGCTGGTAGCTCGGTATGTGTCCTTGATCCCTTTCTTGCCTGATAGCGTGTCGTTTGCTGGAGTCTGTGACCTGTGGAGCACTTCTGATGGCCCCCAATGGGGACTACAGCACAGCCAGCTTACAGTCAGTGAAGGATGACGTATACATTAACATTTTTGATGAAGTGCTGTATGATATCCTAGAGGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-362-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCACTTCTGATGGCCCCCAATGGG
siRNA sets
CATTGGGGGCCATCAGAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCC2D2A_688_ORF_1
1.0805
0.247261552
0.938444516
690
ORF sequence:
ATGGCCCCCAATGGGGACTACAGCACAGCCAGCTTACAGTCAGTGAAGGATGACGTATACATTAACATTTTTGATGAAGTGCTGTATGATATCCTAGAGGATGACCGTGAAAGAGGAAGTGGGATCCATACGCGTATTGAGAGACACTGGTTAGGATGTGTGAAAATCCCATTTAGCACCATCTATTTCCAGGCAAGGATTGATGGCACATTTAAAATAGACATTCCTCCAGTTCTCCTGGGCTATAGTAAGGAGCGAAACATTATTATGGAACGAGCCTTTGATTCTGCCCGAAGCTTGAGTGAAGGCTCCTACATCACCCTGTTTATTACCATTGAGCCTCAGCTGGTTCCTGGGGAGCCTATGAGAGAAAAGATGAGTGACATGCTTAAGAAGTTTGATACCCAGGAAGATGAGAAATTACTTCAAGCAACAGAGAAATTTCAAGCTGAATGTGCCTTAAAATTCCCCCAGCGTCAGTGCCTCACCACAGTGACTGACATGACCGGGAAAACGGTTTTTATTACGCGTTATCTCAAGCCTTTAAACCCTCCGCAGGAGCTCCTTCACGTCTACCCCAACAACCCGCAGGCCACTGCGGAGCTGGTAGCTCGGTATGTGTCCTTGATCCCTTTCTTGCCTGATAGCGTGTCGTTTGCTGGAGTCTGTGACCTGTGGAGCACTTCTGAT
Peptide sequence:
MAPNGDYSTASLQSVKDDVYINIFDEVLYDILEDDRERGSGIHTRIERHWLGCVKIPFSTIYFQARIDGTFKIDIPPVLLGYSKERNIIMERAFDSARSLSEGSYITLFITIEPQLVPGEPMREKMSDMLKKFDTQEDEKLLQATEKFQAECALKFPQRQCLTTVTDMTGKTVFITRYLKPLNPPQELLHVYPNNPQATAELVARYVSLIPFLPDSVSFAGVCDLWSTSD
IRESfinder result
IRESfinder score
0.700636991
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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