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mmu_circCep43_728
Basic information of circular RNA
PanCircBase ID:
mmu_circCep43_728
mm39_Chr. Position ID:
chr17|8388837|8410269|+
Gene name:
Cep43
Transcript:
ENSMUST00000097419.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
5,6,7,8,9,10,11
Exon/intron offsets:
0,2922,5513,12222,14395,16507,21392
Genomic length:
21432
Exon/intron sizes in nt:
138,81,60,227,113,69,40
Flanking exon/introns:
chr17:8388448-8388837|chr17:8410269-8411016
Splice length:
728
Other database IDs:
circAtlas: mmu-Fgfr1op_0008
Human Ortholog IDs:
Mature spliced Sequence:
ATTCAAGGTCTTGAAGGTCGAGAGAACTTGGCCCAGGATTTAGGCATCATTGAAGCAGAAGGTACTGTGGGTGGACCCTTATTATTAGAAGTGATTAGACGCTGTCAACAGAAAGAAAAAGGACCGGCCAGTGTGGAAGGTGCACTGGATCTATCCGATGGACATCCTCCATCAAAGTCACCTGAAGGAAAATCAAGTGCAAACTCCACCCCAAGTAAGATACCAAGGTATAAAGGACAAGGTAAGAAGAAGACAATCGGTCAGAAGCCTGGTGACAAGAAGACTAGCAGTGAGACCAGTCAGAGTGAGCCAAGTGTCTCCTTGTCAGAGTCCAAGAGTAAAAGCAGCCTGCACTCACTGGCCCATGAGACAAGAATTGCATCTTTCTTAAGCAGCAGCGCTGTAGATGCCAGAGACAGCAGTGCCCTTTGTCCAGATGGGGATGATGTGGAAGGAGATTCTTTCTTTGATGATCCCATTCCTAAACCAGAAAAAACCTATGGTTGGAGAGCTGAACCTCGGAAGCAAGTGGGAGGTCTGGCCTCACTGTCTGACAAGCCCCACTTAAGGAGCGGTCTCAGCTCCCTGGCCGGAGCCCCATCGCTAACAGATCCAGAGAGTAAAAGGGGAAGCACCGTCCTGAAGGATCTGAAATTGGTTGGTGAGAAGATTGGATCACTTGGGCTAGGCACTGGAGAAGATGAGGACTATGCTGATGATTTTAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCACCGTCCTGAAGGA
59.33
GCCTAAATCCTGGGCCAAGT
60.03
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCACCGTCCTGAAGGA
59.33
TGCCTAAATCCTGGGCCAAG
60.03
146
PCR template sequence:
GAAGCACCGTCCTGAAGGATCTGAAATTGGTTGGTGAGAAGATTGGATCACTTGGGCTAGGCACTGGAGAAGATGAGGACTATGCTGATGATTTTAATAGATTCAAGGTCTTGAAGGTCGAGAGAACTTGGCCCAGGATTTAGGCATCATTGAAGCAGAAGGTACTGTGGGTGGACCCTTATTATTAGAAGTGATTAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-148a-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-207(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGATTTTAATAGATTCAAGGTCTTG
siRNA sets
TTGAATCTATTAAAATCAT, CTTGAATCTATTAAAATCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.497862955
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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