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mmu_circAkap11_277
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap11_277
mm39_Chr. Position ID:
chr14|78755612|78760142|-
Gene name:
Akap11
Transcript:
ENSMUST00000123853.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,607,4418
Genomic length:
4530
Exon/intron sizes in nt:
4,81,17,112
Flanking exon/introns:
chr14:78753897-78755612|chr14:78760142-78774151
Splice length:
277
Other database IDs:
circAtlas: mmu-Akap11_0024
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTGTGTGGATTTACTCTCCAGCTACATTACACACTGCAGTAATACAGTTATGGCGGCTTTCCAGCCCCTCAGGAGTAGTCACCTAAAGAGCAAAGCGTCTGTCCGAAAAAGCTTCAGTGAAGATGTGTTCCGGTCTGTAAAGTCTTTATTACAGAGCGAGAAGGAGCTATGCAGTGTATCAGGAGGAGAGTGTTTAAACCAGGATGAGCACCCCCAGTTAACTGAGGTCACGTTTCTGGGCTTTAATGAAGAAACAGATGCTGCTCATATACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGATGAGCACCCCCAGTTA
60.25
TGGAAAGCCGCCATAACTGT
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGATGAGCACCCCCAGTTA
60.25
TACTCCTGAGGGGCTGGAAA
59.88
154
PCR template sequence:
TGTATCAGGAGGAGAGTGTTTAAACCAGGATGAGCACCCCCAGTTAACTGAGGTCACGTTTCTGGGCTTTAATGAAGAAACAGATGCTGCTCATATACAGGTGTTGTGTGGATTTACTCTCCAGCTACATTACACACTGCAGTAATACAGTTATGGCGGCTTTCCAGCCCCTCAGGAGTAGTCACCTAAAGAGCAAAGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-342-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTCATATACAGGTGTTGTGTGGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP11_277_ORF_1
0.7243
0.068521609
0.194536601
306
ORF sequence:
ATGAAGAAACAGATGCTGCTCATATACAGGTGTTGTGTGGATTTACTCTCCAGCTACATTACACACTGCAGTAATACAGTTATGGCGGCTTTCCAGCCCCTCAGGAGTAGTCACCTAAAGAGCAAAGCGTCTGTCCGAAAAAGCTTCAGTGAAGATGTGTTCCGGTCTGTAAAGTCTTTATTACAGAGCGAGAAGGAGCTATGCAGTGTATCAGGAGGAGAGTGTTTAAACCAGGATGAGCACCCCCAGTTAACTGAGGTCACGTTTCTGGGCTTTAATGAAGAAACAGATGCTGCTCATATACAG
Peptide sequence:
MKKQMLLIYRCCVDLLSSYITHCSNTVMAAFQPLRSSHLKSKASVRKSFSEDVFRSVKSLLQSEKELCSVSGGECLNQDEHPQLTEVTFLGFNEETDAAHIQ
IRESfinder result
IRESfinder score
0.655900364
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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