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mmu_circAkap13_342
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_342
mm39_Chr. Position ID:
chr7|75385460|75386438|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
27,28,29
Exon/intron offsets:
0,573,895
Genomic length:
978
Exon/intron sizes in nt:
77,182,83
Flanking exon/introns:
chr7:75380359-75385460|chr7:75386438-75389113
Splice length:
342
Other database IDs:
circAtlas: mmu-Akap13_0035
Human Ortholog IDs:
Mature spliced Sequence:
AGGTTCAAGCAGTTCTACTCACTGACATTTTAGTTTTCCTTCAAGAAAAAGACCAGAAATACGTGTTTGCATCCTTGGACCATAAGTCAACAGTGATCTCCTTAAAGAAGCTGATTGTAAGAGAAGTGGCCCATGAGGAGAAAGGCCTGTTCCTCATCAGTATGGGGGTGAAAGATCCAGAGATGGTGGAGGTCCATGCAAGCTCCAGAGAGGAGCGGAATAGCTGGATTCAGATCATTCAGGACACAATCAACTCCCTGAATAGAGATGAAGATGAAGGGATTCCCAGTGAGAATGAAGAAGAAAAGAAATTGTTGGATACCAAAGCCCGGGAGTTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGATTCCCAGTGAGAATGAAGA
59.8
GGTCCAAGGATGCAAACACG
59.76
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGATTCCCAGTGAGAATGA
56.6
GGTCCAAGGATGCAAACACG
59.76
145
PCR template sequence:
GACACAATCAACTCCCTGAATAGAGATGAAGATGAAGGGATTCCCAGTGAGAATGAAGAAGAAAAGAAATTGTTGGATACCAAAGCCCGGGAGTTAAAAGAGGTTCAAGCAGTTCTACTCACTGACATTTTAGTTTTCCTTCAAGAAAAAGACCAGAAATACGTGTTTGCATCCTTGGACCATAAGTCAACAGTGATCTC
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-9-5p(1), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CGGGAGTTAAAAGAGGTTCAAGCAGT
siRNA sets
TGAACCTCTTTTAACTCCC,GAACCTCTTTTAACTCCCG,CTTGAACCTCTTTTAACTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_342_ORF_1
1.2359
0.345560093
0.901943382
522
ORF sequence:
ATGGGGGTGAAAGATCCAGAGATGGTGGAGGTCCATGCAAGCTCCAGAGAGGAGCGGAATAGCTGGATTCAGATCATTCAGGACACAATCAACTCCCTGAATAGAGATGAAGATGAAGGGATTCCCAGTGAGAATGAAGAAGAAAAGAAATTGTTGGATACCAAAGCCCGGGAGTTAAAAGAGGTTCAAGCAGTTCTACTCACTGACATTTTAGTTTTCCTTCAAGAAAAAGACCAGAAATACGTGTTTGCATCCTTGGACCATAAGTCAACAGTGATCTCCTTAAAGAAGCTGATTGTAAGAGAAGTGGCCCATGAGGAGAAAGGCCTGTTCCTCATCAGTATGGGGGTGAAAGATCCAGAGATGGTGGAGGTCCATGCAAGCTCCAGAGAGGAGCGGAATAGCTGGATTCAGATCATTCAGGACACAATCAACTCCCTGAATAGAGATGAAGATGAAGGGATTCCCAGTGAGAATGAAGAAGAAAAGAAATTGTTGGATACCAAAGCCCGGGAGTTAAAA
Peptide sequence:
MGVKDPEMVEVHASSREERNSWIQIIQDTINSLNRDEDEGIPSENEEEKKLLDTKARELKEVQAVLLTDILVFLQEKDQKYVFASLDHKSTVISLKKLIVREVAHEEKGLFLISMGVKDPEMVEVHASSREERNSWIQIIQDTINSLNRDEDEGIPSENEEEKKLLDTKARELK
IRESfinder result
IRESfinder score
0.662121393
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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