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mmu_circCpeb3_350
Basic information of circular RNA
PanCircBase ID:
mmu_circCpeb3_350
mm39_Chr. Position ID:
chr19|37045572|37065960|-
Gene name:
Cpeb3
Transcript:
ENSMUST00000136286.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,19365,20247
Genomic length:
20388
Exon/intron sizes in nt:
1,19,90,141
Flanking exon/introns:
chr19:37031774-37045572|chr19:37065960-37103731
Splice length:
350
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACGCCTTCTTGGATGACAGCCATGGTGATCAGGCCTTATCGTCTGGCTTAAGTTCTCCTACTCGATGTCAAAATGGGGAACGAGTGGAACGCTACTCTAGAAAGGTGTTTGTTGGAGGCCTTCCTCCTGACATCGATGAAGATGAGATCACTGCCAGCTTTCGCAGGTTTGGACCCCTTGTGGTGGACTGGCCTCATAAAGCCGAGAGCAAATCGTACTTCCCTCCTAAAGGCTATGCTTTCCTGCTGTTCCAGGAGGAGAGCTCAGTGCAAGCTCTGATAGATGCCTGCCTGGAGGAGGATGGGAAACTGTACCTGTGTGTGTCCAGCCCAACCATCAAGGATAAACCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGATGCCTGCCTGGAGGA
60.1
AGTAGCGTTCCACTCGTTCC
59.76
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGATGCCTGCCTGGAGGA
60.1
CGTTCCACTCGTTCCCCATT
60.32
163
PCR template sequence:
CCAGGAGGAGAGCTCAGTGCAAGCTCTGATAGATGCCTGCCTGGAGGAGGATGGGAAACTGTACCTGTGTGTGTCCAGCCCAACCATCAAGGATAAACCGACGCCTTCTTGGATGACAGCCATGGTGATCAGGCCTTATCGTCTGGCTTAAGTTCTCCTACTCGATGTCAAAATGGGGAACGAGTGGAACGCTACTCTAG
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-34a-5p(1), mmu-miR-146a-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGGATAAACCGACGCCTTCTTGGA
siRNA sets
AGAAGGCGTCGGTTTATCC, GAAGGCGTCGGTTTATCCT, AAGAAGGCGTCGGTTTATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCPEB3_350_ORF_3
0.9205
-0.353651119
0.012280189
84
ORF sequence:
ATGCCTGCCTGGAGGAGGATGGGAAACTGTACCTGTGTGTGTCCAGCCCAACCATCAAGGATAAACCGACGCCTTCTTGGATGA
Peptide sequence:
MPAWRRMGNCTCVCPAQPSRINRRLLG
IRESfinder result
IRESfinder score
0.293257882
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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