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mmu_circFndc3b_351
Basic information of circular RNA
PanCircBase ID:
mmu_circFndc3b_351
mm39_Chr. Position ID:
chr3|27545173|27555694|-
Gene name:
Fndc3b
Transcript:
ENSMUST00000195008.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,7752,10369
Genomic length:
10521
Exon/intron sizes in nt:
1,39,60,152
Flanking exon/introns:
chr3:27542439-27545173|chr3:27555694-27562629
Splice length:
351
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38238, circAtlas: mmu-Fndc3b_0018
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_105959
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCTAATATCCAGGCAAGAGCAGTTGTGCTGTCTTGGGCACCCCCTGTCGGACTGTCCTGTGGACCCCATGGTGGTCTTTCCTTCCCTTACAGCTATGAGGTCGCCTTATCTGACAAAGGGCGAGATGGGAAATACAAGATCATTTACAGTGGAGAAGAGTTGGAGTGTAACCTGAAAGATCTCAGGCCTGCCACGGATTACCATGTGAGGGTATATGCCGTGTACAATTCTGTCAAGGGATCCTGCTCCGAGCCAGTCAGCTTCACCACCCATAGCTGCGCACCAGAATGTCCCTTCCCTCCCAAGCTGGCACACAGGAGCAAAAGTTCACTTACCCTGCAGTGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGCTGCGCACCAGAATGT
60.11
AAGGAAAGACCACCATGGGG
59.59
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATGTCCCTTCCCTCCCA
59.88
AAGGAAAGACCACCATGGGG
59.59
150
PCR template sequence:
CGAGCCAGTCAGCTTCACCACCCATAGCTGCGCACCAGAATGTCCCTTCCCTCCCAAGCTGGCACACAGGAGCAAAAGTTCACTTACCCTGCAGTGGAAGGTGTCTAATATCCAGGCAAGAGCAGTTGTGCTGTCTTGGGCACCCCCTGTCGGACTGTCCTGTGGACCCCATGGTGGTCTTTCCTTCCCTTACAGCTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCAGTGGAAGGTGTCTAATATCC
siRNA sets
TATTAGACACCTTCCACTG, ATATTAGACACCTTCCACT, TTAGACACCTTCCACTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFNDC3B_351_ORF_1
0.6468
-0.120388562
0.091334552
312
ORF sequence:
ATGCCGTGTACAATTCTGTCAAGGGATCCTGCTCCGAGCCAGTCAGCTTCACCACCCATAGCTGCGCACCAGAATGTCCCTTCCCTCCCAAGCTGGCACACAGGAGCAAAAGTTCACTTACCCTGCAGTGGAAGGTGTCTAATATCCAGGCAAGAGCAGTTGTGCTGTCTTGGGCACCCCCTGTCGGACTGTCCTGTGGACCCCATGGTGGTCTTTCCTTCCCTTACAGCTATGAGGTCGCCTTATCTGACAAAGGGCGAGATGGGAAATACAAGATCATTTACAGTGGAGAAGAGTTGGAGTGTAACCTGA
Peptide sequence:
MPCTILSRDPAPSQSASPPIAAHQNVPSLPSWHTGAKVHLPCSGRCLISRQEQLCCLGHPLSDCPVDPMVVFPSLTAMRSPYLTKGEMGNTRSFTVEKSWSVT
IRESfinder result
IRESfinder score
0.569687421
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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