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mmu_circAcaca_398
Basic information of circular RNA
PanCircBase ID:
mmu_circAcaca_398
mm39_Chr. Position ID:
chr11|84113967|84119852|+
Gene name:
Acaca
Transcript:
ENSMUST00000103201.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1302,2992,5778
Genomic length:
5885
Exon/intron sizes in nt:
1,10,82,99,107
Flanking exon/introns:
chr11:84106798-84113967|chr11:84119852-84122476
Splice length:
398
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212427, circAtlas: mmu-Acaca_0028
Human Ortholog IDs:
Mature spliced Sequence:
AATACATTAAGATGGCAGACCACTATGTTCCAGTGCCTGGAGGACCCAACAACAACAATTACGCAAATGTGGAGTTGATTCTTGATATTGCTAAAAGGATACCTGTACAAGCAGTGTGGGCTGGCTGGGGTCATGCCTCTGAGAACCCGAAACTCCCAGAACTGCTCTTAAAAAATGGCATTGCTTTCATGGGCCCTCCAAGCCAGGCCATGTGGGCTTTGGGGGATAAGATTGCATCTTCTATTGTGGCTCAAACTGCAGGTATCCCAACTCTTCCCTGGAGTGGCAGTGGTCTTCGAGTGGATTGGCAAGAAAATGATTTTTCGAAACGTATCTTAAATGTTCCACAGGATCTGTATGAGAAAGGCTATGTGAAGGATGTGGATGATGGTCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGATTGGCAAGAAAATGA
56.03
TGTTGTTGTTGGGTCCTCCA
59.37
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGATTGGCAAGAAAATGA
56.03
TTGTTGTTGTTGGGTCCTCCA
59.99
158
PCR template sequence:
AGTGGATTGGCAAGAAAATGATTTTTCGAAACGTATCTTAAATGTTCCACAGGATCTGTATGAGAAAGGCTATGTGAAGGATGTGGATGATGGTCTGAAGAATACATTAAGATGGCAGACCACTATGTTCCAGTGCCTGGAGGACCCAACAACAACAATTACGCAAATGTGGAGTTGATTCTTGATATTGCTAAAAGGAT
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
TGATGGTCTGAAGAATACATTAAGAT
siRNA sets
ATCTTAATGTATTCTTCAG, TAATGTATTCTTCAGACCA, TTAATGTATTCTTCAGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACACA_398_ORF_1
0.985
0.123180094
0.605694351
465
ORF sequence:
ATGGCAGACCACTATGTTCCAGTGCCTGGAGGACCCAACAACAACAATTACGCAAATGTGGAGTTGATTCTTGATATTGCTAAAAGGATACCTGTACAAGCAGTGTGGGCTGGCTGGGGTCATGCCTCTGAGAACCCGAAACTCCCAGAACTGCTCTTAAAAAATGGCATTGCTTTCATGGGCCCTCCAAGCCAGGCCATGTGGGCTTTGGGGGATAAGATTGCATCTTCTATTGTGGCTCAAACTGCAGGTATCCCAACTCTTCCCTGGAGTGGCAGTGGTCTTCGAGTGGATTGGCAAGAAAATGATTTTTCGAAACGTATCTTAAATGTTCCACAGGATCTGTATGAGAAAGGCTATGTGAAGGATGTGGATGATGGTCTGAAGAATACATTAAGATGGCAGACCACTATGTTCCAGTGCCTGGAGGACCCAACAACAACAATTACGCAAATGTGGAGTTGA
Peptide sequence:
MADHYVPVPGGPNNNNYANVELILDIAKRIPVQAVWAGWGHASENPKLPELLLKNGIAFMGPPSQAMWALGDKIASSIVAQTAGIPTLPWSGSGLRVDWQENDFSKRILNVPQDLYEKGYVKDVDDGLKNTLRWQTTMFQCLEDPTTTITQMWS
IRESfinder result
IRESfinder score
0.546290035
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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