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mmu_circUso1_1570
Basic information of circular RNA
PanCircBase ID:
mmu_circUso1_1570
mm39_Chr. Position ID:
chr5|92318531|92340710|+
Gene name:
Uso1
Transcript:
ENSMUST00000031355.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
8,9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,3253,6762,9869,10667,11225,16562,17025,17270,18550,22040
Genomic length:
22179
Exon/intron sizes in nt:
121,179,141,89,155,212,111,119,182,122,139
Flanking exon/introns:
chr5:92315192-92318531|chr5:92340710-92341870
Splice length:
1570
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCGTCTTACTACTGCAGGCATTAACAAGGAGCAATGGAGCAATCCAGAAAATTGTTGCTTTTGAAAATGCTTTTGAGCGACTGCTGGACATTATTACAGAGGAGGGGAACAGTGACGGAGGTATAGTAGTGGAAGATTGTTTGATTTTACTTCAAAACTTGTTAAAAACCAACAATTCCAATCAAAACTTTTTTAAAGAAGGCTCTTATATTCAACGCATGAAACCTTGGTTTGAAGTTGGAGAGGAAAACTCTGGTTGGTCAGCACAGAAAGTGACCAATCTACATTTAATGCTCCAGCTTGTGCGGGTACTGGTATCTCCCACCAACCCTCCCGGTGCTACCAGTAGCTGCCAGAAGGCCATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTATCCTGATGGCTACTGGGATTCCTGCTGATATCCTGACAGAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAGACCTACAACTGGAGGAACTGAAACAGCAAGTCTCCACCCTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGTCAGAACGAGCAGCT
59.61
TGGATTGCTCCATTGCTCCT
59.37
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGTCAGAACGAGCAGCT
59.61
TGGATTGCTCCATTGCTCCTT
59.99
144
PCR template sequence:
CTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCGGGCGTCTTACTACTGCAGGCATTAACAAGGAGCAATGGAGCAATCCAGAAAATTGTTGCTTTTGAAAATGCTTTTGAGCGACTGCTGGACATTATTACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
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-320-3p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-351-5p(1), mmu-miR-382-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-370-3p(1), mmu-miR-410-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGTTCAGCTCGGGCGTCTTACTAC
siRNA sets
TAAGACGCCCGAGCTGAAC, GTAGTAAGACGCCCGAGCT, TAGTAAGACGCCCGAGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSO1_1570_ORF_1
1.0811
0.161923727
0.999486803
1416
ORF sequence:
ATGAAACCTTGGTTTGAAGTTGGAGAGGAAAACTCTGGTTGGTCAGCACAGAAAGTGACCAATCTACATTTAATGCTCCAGCTTGTGCGGGTACTGGTATCTCCCACCAACCCTCCCGGTGCTACCAGTAGCTGCCAGAAGGCCATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTATCCTGATGGCTACTGGGATTCCTGCTGATATCCTGACAGAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGACCGGCAATTGTTGTGCTGCTCATGTCCATGGTCAACGAGCGGCAGCCGTTTGTGCTGCGATGTGCCGTGCTCTACTGTTTCCAGTGCTTCCTGTATAAAAACGAGAAAGGACAAGGAGAGATCGTGGCCACTCTTCTGCCTTCCACTATTGATGCAACAGGTAACTCCGTCTCAGCCGGTCAGCTGCTCTGCGGAGGTTTGTTTTCTACAGACTCTCTCTCTAACTGGTGTGCTGCTGTGGCCCTCGCCCATGCGCTGCAGGGAAATGCCACCCAGAAAGAGCAACTGCTCAGGGTTCAGCTGGCCACCAGCATCGGCAACCCTCCGGTGTCGCTCCTGCAGCAATGCACCAACATTCTTTCCCAGGGAAGCAAAATACAGACAAGAGTCGGGTTGTTAATGTTGCTCTGTACCTGGCTAAGCAACTGTCCTATTGCTGTAACACATTTTCTTCACAACTCAGCCAATGTTCCATTCCTTACAGGACAGATTGCAGAAAATCTCGGAGAAGAAGAGCAGTTGGTCCAAGGCTTATGTGCCCTTCTTTTGGGCATTTCAATTTATTTCAACGATAACTCACTAGAAAACTACACAAAAGAGAAACTAAAGCAACTAATAGAGAAGAGGATTGGCAAAGAGAATTTCATAGAGAAACTAGGATTTATTAGCAAACATGAGTTATATTCCAGAGCGTCTCAGAAACCCCAGCCAAACTTTCCGAGTCCAGAGTATATGATATTTGATCATGAGTTTACAAAGCTGGTGAAAGAACTCGAAGGTGTTATTACCAAGGCTATTTATAAGTCCAGTGAGGAAGATAAGAAAGAGGAAGAGGTAAAGAAAACCTTAGAGCAGCATGATAACATCGTGACTCACTATAAGAATATGATCCGTGAGCAAGACCTACAACTGGAGGAACTGAAACAGCAAGTCTCCACCCTGAAGTGTCAGAACGAGCAGCTACAGACAGCAGTCACCCAGCAGGCATCTCAGATTCAGCAGCACAAGGACCAGTACAATCTCCTCAAAGTTCAGCTCGGGCGTCTTACTACTGCAGGCATTAACAAGGAGCAATGGAGCAATCCAGAAAATTGTTGCTTTTGA
Peptide sequence:
MKPWFEVGEENSGWSAQKVTNLHLMLQLVRVLVSPTNPPGATSSCQKAMFQCGLLQQLCTILMATGIPADILTETINTVSEVIRGCQVNQDYFASVNAPSNPPRPAIVVLLMSMVNERQPFVLRCAVLYCFQCFLYKNEKGQGEIVATLLPSTIDATGNSVSAGQLLCGGLFSTDSLSNWCAAVALAHALQGNATQKEQLLRVQLATSIGNPPVSLLQQCTNILSQGSKIQTRVGLLMLLCTWLSNCPIAVTHFLHNSANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFNDNSLENYTKEKLKQLIEKRIGKENFIEKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVITKAIYKSSEEDKKEEEVKKTLEQHDNIVTHYKNMIREQDLQLEELKQQVSTLKCQNEQLQTAVTQQASQIQQHKDQYNLLKVQLGRLTTAGINKEQWSNPENCCF
IRESfinder result
IRESfinder score
0.647826413
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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