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mmu_circUso1_1380
Basic information of circular RNA
PanCircBase ID:
mmu_circUso1_1380
mm39_Chr. Position ID:
chr5|92328400|92343293|+
Gene name:
Uso1
Transcript:
ENSMUST00000031355.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,798,1356,6693,7156,7401,8681,12171,13470,14806
Genomic length:
14893
Exon/intron sizes in nt:
89,155,212,111,119,182,122,139,164,87
Flanking exon/introns:
chr5:92325434-92328400|chr5:92343293-92346194
Splice length:
1380
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAGACCTACAACTGGAGGAACTGAAACAGCAAGTCTCCACCCTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCGGAAAAGACAATCACCATCAAGGTTCCCACGGTGACGGGGCTCAGGTGAATGGCATTCAGCCGGAAGAAATCAGTCGGCTGAGGGAAGAGATAGAAGAGTTAAAAAGTCAGCAGGCGCTCTTACAAGGCCAGCTAGCTGAAAAGGACTCATTGATTGAAAATTTGAAATCTTCGCAAGCGTCTGGCATGAGTGAACAGGCTTCAGCAACATGTCCTCCCAGAGATCCCGAGCAAGTTGCAGAGTTAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCATGAGTGAACAGGCTT
59.89
TCGTGGGGGATTTGAAGGTG
59.96
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCATGAGTGAACAGGCTT
59.89
GTCGTGGGGGATTTGAAGGT
59.96
161
PCR template sequence:
GATTGAAAATTTGAAATCTTCGCAAGCGTCTGGCATGAGTGAACAGGCTTCAGCAACATGTCCTCCCAGAGATCCCGAGCAAGTTGCAGAGTTAAAGCAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGACCGGCAATTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
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-18a-5p(1), mmu-miR-203-3p(1), mmu-miR-431-5p(1), mmu-miR-351-5p(1), mmu-miR-382-3p(1), mmu-miR-370-3p(1), mmu-miR-410-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGTTAAAGCAGACCATAAATACTG
siRNA sets
TTTATGGTCTGCTTTAACT, ATTTATGGTCTGCTTTAAC, TATTTATGGTCTGCTTTAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSO1_1380_ORF_1
1.0531
0.191431187
0.999999935
2649
ORF sequence:
ATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAGACCTACAACTGGAGGAACTGAAACAGCAAGTCTCCACCCTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCGGAAAAGACAATCACCATCAAGGTTCCCACGGTGACGGGGCTCAGGTGAATGGCATTCAGCCGGAAGAAATCAGTCGGCTGAGGGAAGAGATAGAAGAGTTAAAAAGTCAGCAGGCGCTCTTACAAGGCCAGCTAGCTGAAAAGGACTCATTGATTGAAAATTTGAAATCTTCGCAAGCGTCTGGCATGAGTGAACAGGCTTCAGCAACATGTCCTCCCAGAGATCCCGAGCAAGTTGCAGAGTTAAAGCAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAGACCTACAACTGGAGGAACTGAAACAGCAAGTCTCCACCCTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCGGAAAAGACAATCACCATCAAGGTTCCCACGGTGACGGGGCTCAGGTGAATGGCATTCAGCCGGAAGAAATCAGTCGGCTGAGGGAAGAGATAGAAGAGTTAAAAAGTCAGCAGGCGCTCTTACAAGGCCAGCTAGCTGAAAAGGACTCATTGATTGAAAATTTGAAATCTTCGCAAGCGTCTGGCATGAGTGAACAGGCTTCAGCAACATGTCCTCCCAGAGATCCCGAGCAAGTTGCAGAGTTAAAGCAG
Peptide sequence:
MSMVNERQPFVLRCAVLYCFQCFLYKNEKGQGEIVATLLPSTIDATGNSVSAGQLLCGGLFSTDSLSNWCAAVALAHALQGNATQKEQLLRVQLATSIGNPPVSLLQQCTNILSQGSKIQTRVGLLMLLCTWLSNCPIAVTHFLHNSANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFNDNSLENYTKEKLKQLIEKRIGKENFIEKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVITKAIYKSSEEDKKEEEVKKTLEQHDNIVTHYKNMIREQDLQLEELKQQVSTLKCQNEQLQTAVTQQASQIQQHKDQYNLLKVQLGKDNHHQGSHGDGAQVNGIQPEEISRLREEIEELKSQQALLQGQLAEKDSLIENLKSSQASGMSEQASATCPPRDPEQVAELKQTINTVSEVIRGCQVNQDYFASVNAPSNPPRPAIVVLLMSMVNERQPFVLRCAVLYCFQCFLYKNEKGQGEIVATLLPSTIDATGNSVSAGQLLCGGLFSTDSLSNWCAAVALAHALQGNATQKEQLLRVQLATSIGNPPVSLLQQCTNILSQGSKIQTRVGLLMLLCTWLSNCPIAVTHFLHNSANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFNDNSLENYTKEKLKQLIEKRIGKENFIEKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVITKAIYKSSEEDKKEEEVKKTLEQHDNIVTHYKNMIREQDLQLEELKQQVSTLKCQNEQLQTAVTQQASQIQQHKDQYNLLKVQLGKDNHHQGSHGDGAQVNGIQPEEISRLREEIEELKSQQALLQGQLAEKDSLIENLKSSQASGMSEQASATCPPRDPEQVAELKQ
IRESfinder result
IRESfinder score
0.567676588
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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