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mmu_circUso1_901
Basic information of circular RNA
PanCircBase ID:
mmu_circUso1_901
mm39_Chr. Position ID:
chr5|92329198|92337203|+
Gene name:
Uso1
Transcript:
ENSMUST00000031355.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,13,14,15,16,17
Exon/intron offsets:
0,558,5895,6358,6603,7883
Genomic length:
8005
Exon/intron sizes in nt:
1,55,21,21,11,11,91,82,000
Flanking exon/introns:
chr5:92328489-92329198|chr5:92337203-92340571
Splice length:
901
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAACCTTAGAGCAGCATGA
57.71
AAACAGTAGAGCACGGCACA
59.89
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAACCTTAGAGCAGCATGA
57.71
ACAGTAGAGCACGGCACATC
60.11
141
PCR template sequence:
TAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(2), mmu-miR-15a-5p(2), mmu-miR-15b-5p(2), mmu-miR-322-5p(1), mmu-miR-33-5p(1), mmu-miR-203-3p(1), mmu-miR-351-5p(1), mmu-miR-410-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GATCCGTGAGCAAACCGGCAATTGTT
siRNA sets
AACAATTGCCGGTTTGCTC, AATTGCCGGTTTGCTCACG, ACAATTGCCGGTTTGCTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSO1_901_ORF_1
1.0553
0.116884644
0.98541001
978
ORF sequence:
ATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAA
Peptide sequence:
MSMVNERQPFVLRCAVLYCFQCFLYKNEKGQGEIVATLLPSTIDATGNSVSAGQLLCGGLFSTDSLSNWCAAVALAHALQGNATQKEQLLRVQLATSIGNPPVSLLQQCTNILSQGSKIQTRVGLLMLLCTWLSNCPIAVTHFLHNSANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFNDNSLENYTKEKLKQLIEKRIGKENFIEKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVITKAIYKSSEEDKKEEEVKKTLEQHDNIVTHYKNMIREQTGNCCAAHVHGQRAAAVCAAMCRALLFPVLPV
IRESfinder result
IRESfinder score
0.593622499
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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