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mmu_circAcox3_513
Basic information of circular RNA
PanCircBase ID:
mmu_circAcox3_513
mm39_Chr. Position ID:
chr5|35749419|35757218|+
Gene name:
Acox3
Transcript:
ENSMUST00000068947.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,8,9,10
Exon/intron offsets:
0,2234,6239,7616
Genomic length:
7799
Exon/intron sizes in nt:
1,44,89,97,183
Flanking exon/introns:
chr5:35747127-35749419|chr5:35757218-35758846
Splice length:
513
Other database IDs:
circAtlas: mmu-Acox3_0003
Human Ortholog IDs:
Mature spliced Sequence:
GAATTCATCTTACATTCCCCGGATTTCGAGGCTGCCAAATTTTGGGTGGGCAACCTGGGCAAGACGGCAACTCATGCGGTGGTGTTTGCCCAACTGTACATGCCAGACGGCCAGTGCCACGGGCTGCATTCCTTCCTGGTGCAGATCCGTGACACGAAGACCCTGCTTCCCATGACGGGGGTGATGGTCGGTGACATTGGGAAGAAGCTGGGGCAGAATGGCCTGGATAATGGATTCGCCATGTTCAACAAAGTTCGAATTCCTCGCCAGAACCTGCTGGACAGGACTGGGAATATCACCTCTGAGGGCACTTACAACAGCCCCTTTAAGGATGTCCGGCAGCGTTTGGGCGCATCATTGGGCAGCCTGTCCTCAGGACGCATCTCCATCATCAGCATGTCTGTGGTCAACCTGAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGTTTGGACCCACGGAT
59.96
AAACACCACCGCATGAGTTG
59.33
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGTTTGGACCCACGGAT
59.96
CAAACACCACCGCATGAGTT
59.33
144
PCR template sequence:
GAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAGGAATTCATCTTACATTCCCCGGATTTCGAGGCTGCCAAATTTTGGGTGGGCAACCTGGGCAAGACGGCAACTCATGCGGTGGTGTTTGCCCAACTGTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-214-3p(1), mmu-miR-676-3p(1), mmu-miR-467b-5p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATCCACTGCAGGAATTCATCTTAC
siRNA sets
AAGATGAATTCCTGCAGTG, TAAGATGAATTCCTGCAGT, AGATGAATTCCTGCAGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACOX3_513_ORF_1
1.281
0.476190854
0.996832339
927
ORF sequence:
ATGCCAGACGGCCAGTGCCACGGGCTGCATTCCTTCCTGGTGCAGATCCGTGACACGAAGACCCTGCTTCCCATGACGGGGGTGATGGTCGGTGACATTGGGAAGAAGCTGGGGCAGAATGGCCTGGATAATGGATTCGCCATGTTCAACAAAGTTCGAATTCCTCGCCAGAACCTGCTGGACAGGACTGGGAATATCACCTCTGAGGGCACTTACAACAGCCCCTTTAAGGATGTCCGGCAGCGTTTGGGCGCATCATTGGGCAGCCTGTCCTCAGGACGCATCTCCATCATCAGCATGTCTGTGGTCAACCTGAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAGGAATTCATCTTACATTCCCCGGATTTCGAGGCTGCCAAATTTTGGGTGGGCAACCTGGGCAAGACGGCAACTCATGCGGTGGTGTTTGCCCAACTGTACATGCCAGACGGCCAGTGCCACGGGCTGCATTCCTTCCTGGTGCAGATCCGTGACACGAAGACCCTGCTTCCCATGACGGGGGTGATGGTCGGTGACATTGGGAAGAAGCTGGGGCAGAATGGCCTGGATAATGGATTCGCCATGTTCAACAAAGTTCGAATTCCTCGCCAGAACCTGCTGGACAGGACTGGGAATATCACCTCTGAGGGCACTTACAACAGCCCCTTTAAGGATGTCCGGCAGCGTTTGGGCGCATCATTGGGCAGCCTGTCCTCAGGACGCATCTCCATCATCAGCATGTCTGTGGTCAACCTGAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAG
Peptide sequence:
MPDGQCHGLHSFLVQIRDTKTLLPMTGVMVGDIGKKLGQNGLDNGFAMFNKVRIPRQNLLDRTGNITSEGTYNSPFKDVRQRLGASLGSLSSGRISIISMSVVNLKLAVSIAIRFSATRCQFGPTDKEEIPVLEYPLQEFILHSPDFEAAKFWVGNLGKTATHAVVFAQLYMPDGQCHGLHSFLVQIRDTKTLLPMTGVMVGDIGKKLGQNGLDNGFAMFNKVRIPRQNLLDRTGNITSEGTYNSPFKDVRQRLGASLGSLSSGRISIISMSVVNLKLAVSIAIRFSATRCQFGPTDKEEIPVLEYPLQ
IRESfinder result
IRESfinder score
0.273135986
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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