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mmu_circAkap13_278
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_278
mm39_Chr. Position ID:
chr7|75392383|75393757|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
31,32,33
Exon/intron offsets:
0,830,1329
Genomic length:
1374
Exon/intron sizes in nt:
162,71,45
Flanking exon/introns:
chr7:75389308-75392383|chr7:75393757-75396507
Splice length:
278
Other database IDs:
circAtlas: mmu-Akap13_0028
circAtlas: hsa-AKAP13_0026, CIRCpedia: HSA_CIRCpedia_83995
Human Ortholog IDs:
Mature spliced Sequence:
TGGAAATCCTTCAGAGTTTGGTGAGTGGAAGCCTCGGTGGCACACTTGGACAGTCCATCAGCAGCCCTGTTGAACAGGAAGTCATGGCTGCGCCCATTTCTTTGCCCCGGAGAGCAGAGACCTTTGGAGGATTTGACTGTCATCAGATGAATGCTTCCAAAGGAGGTGAGAAAGAAGAGGGTGATGACGGCCAAGATCTCAGGAGAACAGAGTCAGACAGCGGCCTGAAAAAGGGTGGAAATGGTAACCTGGTATTTATGCTTAAAAGAAACAGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACGGCCAAGATCTCAGGAG
59.9
TGTTCAACAGGGCTGCTGAT
59.89
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGATGACGGCCAAGATCT
59.82
TGTTCAACAGGGCTGCTGAT
59.89
175
PCR template sequence:
GGGTGATGACGGCCAAGATCTCAGGAGAACAGAGTCAGACAGCGGCCTGAAAAAGGGTGGAAATGGTAACCTGGTATTTATGCTTAAAAGAAACAGTGAGTGGAAATCCTTCAGAGTTTGGTGAGTGGAAGCCTCGGTGGCACACTTGGACAGTCCATCAGCAGCCCTGTTGAACAGGAAGTCATGGCTGCGCCCATTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AAGAAACAGTGAGTGGAAATCCTTCA
siRNA sets
GATTTCCACTCACTGTTTC,AAGGATTTCCACTCACTGT,ATTTCCACTCACTGTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_278_ORF_1
0.6819
0.089719065
0.114980042
219
ORF sequence:
ATGGCTGCGCCCATTTCTTTGCCCCGGAGAGCAGAGACCTTTGGAGGATTTGACTGTCATCAGATGAATGCTTCCAAAGGAGGTGAGAAAGAAGAGGGTGATGACGGCCAAGATCTCAGGAGAACAGAGTCAGACAGCGGCCTGAAAAAGGGTGGAAATGGTAACCTGGTATTTATGCTTAAAAGAAACAGTGAGTGGAAATCCTTCAGAGTTTGGTGA
Peptide sequence:
MAAPISLPRRAETFGGFDCHQMNASKGGEKEEGDDGQDLRRTESDSGLKKGGNGNLVFMLKRNSEWKSFRVW
IRESfinder result
IRESfinder score
0.454374003
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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