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mmu_ciCnot1_3361
Basic information of circular RNA
PanCircBase ID:
mmu_ciCnot1_3361
mm39_Chr. Position ID:
chr8|96463074|96466435|-
Gene name:
Cnot1
Transcript:
ENSMUST00000213006.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
34
Exon/intron offsets:
0
Genomic length:
3361
Exon/intron sizes in nt:
3361
Flanking exon/introns:
chr8:96463021-96466435
Splice length:
3361
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAATACCTCATTTGATTAACTTGTTTGTGTTGTGGAATACAATTTAATAGTGCATTGCTTTCTGCTGGGGAGCTTGTTACCGGGTAGGAAAATGGAAGCCATTGGTTACAACTGATCTTTGTTAGATCAGCATGTCAAGCAGTGTAGTGAGTCCTGGCATTAGCTTGACTACTGTTTAGTTCAAGGAAACTTAACTTTTGACTTCCCTTTCCTTTTTTAAATATTTGTTTCTTTAATTTATACTTAAATTTAATGAAAGGGAGTTTCTAAGATTGTGCAGCACATTTAATTGAAGTTGACACTACAAGGAAAACATTTTCCCATAAACCACTTGAGTTGTAGAGCTGCTATCTGCTTTGTTTCTGTTGATTTACTTTTAGAAAGAAAATAACATAAAGCACCTTTATTGAATTTGTATTCTTTTCTGGAGGCTCTTGTCTCTTTTAAAAATAATTTTAAGGTTTAGTTTTTATTAATTTCATCTCTATTATTTTCTTACTTATCCATCTCCAGTTCCTCTGGAGTCCCAGGAAAGAGAAAAAGATTGCTATAAATTGTCCTCTGACTTCCACATATGCATCCATATTCCGCTGAATTTAATGAGGGCAGCCTTCATCGGCATGGGTATAGGTGGGGTTTTTCTGGATCCTAGAAGCTTAACATAAGCTACACCCCAAAAACATATTTGTACCCTTGTTTAAATAATTCCCTGAGCCTTAGAGGAAGTGTTCAGGGCAAAGTTCAACAGTTACTCATTCTCAGCTCCTTGACCAGTCTTCTCTGTTAACCATTGGAAAACAAGCTTTTGCAACGTAGGTTGAGAGGAGTATTAAGAGTATAAAGATGCATATTTAGAAGACAGTTCGACAACATGTCCACTTAGCGAAACAAAAGTAGTAATTTCCTTTCCACCAGAGTCGTCCCAACCATGGGCTTTTAGCCGGTTTTATAGTACGAGGCTTGAATTCCCTCCTTGGAGTGGGACTCATTTCAGCCAGAAGGTGGCAGATTATCCCCATATTGATGCCACTATTGCACCGGTAGACATATCTTACTTGACTTAGAGCTTACATGGCTCACAGCTGAGTAGGGCCATAGAGAATTCCCTAGCAGCCTACAGATTAATTTCCTATGCTAAGAAAGCTACCTAGCAGAGGAGCTTGTTTTAGTTCAGTTCTAGCTTGTTGTTTGGTTTGTTTTGCTTTTTTTTTCTCCCATTTTCTGTTCTACTGCTTGGCAGCTGTGAGTAATTGCAGTAGCCTGTCTTGTTTTGAGGGGCTCTAAGACTTCCCTGAACAACAACCTGTTAGGGGGGTATCGAATGGGAATTTTGGTAACTAGGATATCATTTACTTACTAATGTTTAACACTGCCCATTCATTCAGTCTTAGTTTTTCTCTTCCCGTCACCTCTCAGTGTGTATACACAAATTAAGTTTTGTTTGCTTGTTTTTGTTTGTGTGTGTATTTTTTTTTGTTGTTGTTGTTGTTGTTGTATTTGAGATTGGGTTTCATAGAGCTCAGAATCGTTTTGAACTCTGTAGCCAAGGGTGACTTTGCCCTCCTAATCTTCTGCCCCCACCTCCCACCTCCTTAGTGTTAGAATTACAAATATACACCACTGCACTTGGTTTATGAGGTCCTGAAAAACTGAACCTTGTGTGTGCTAAGCCCTCTACCCACCAAACTACAGCCTCAACTTTTTTTGTTTTTTTAATTATTAGTTTACAAAGTAGTGGCACCCCCGCCCCCAACACAGGGTAGCCTGTATCACTGACTGTCCTGGGACTCTCAGTTCTGCCTCCACATGCTGGAGTTAAAAGCATGTACCACAATGCCCAGCCAGAGAAGAGAGTTTAAAGGTCTTTGGATTCTAGCTAAGCACTGGCTCACCACAAGGTTTTGGAGTGACAGGTTCAGTTATATTGCTGTTGCCTTGATCTAGAATTTACCATTTCTTTTTATACACACACACACCTCTCCCTTATACTTCAGGCATGTACAGTAATGCTCAAGTGGCTTATAGTGGATTCTTCCTTATAACCATAGTGTGCAAATGTTTTATGTTTTTAAAGATTTGTTTATTTTATGTATATAAGTACACTGTAGCTGTACAGATGGTTGCGAGCCACCATGTTGTTTCTGGAATTTGAACTCAGGACCTTCAGAAGAGCAGTCGGGTTTTTTAACCACTGAACCATCTCTCCAGCCTGTGTGCAAATGTTAAAATCAAGAAATTAAATGCTAGTATCCTCATCTAATTCTTTTAAACTTCAAGTTGTTGCTTCAAGTTGTTGGAGTAATGCTCTTTTAGAATCATACATTTCATGTAGTGGTTCTTTGAAATAACCCCCTGAATTTCCTCATTTGTTCTGGGATTCACCCAGGGCCTTGGATGTGGTAACTGAATGCTCTGCTGCTGAGCTACACTCAGATTTTTATAGTACTTCCACTTACTCCAGAGTATGGATATGATTTTGTGTATGCATTCATGAAGTGTGTATGTGTGCATGTGTGGTAGACAAAAGACTGTTCTCACTTTTCACCTTTTTTTGAAACCCAGTCTCTTCATTTTTCACTCCTGTGTGCCCCAGGCTAGCTGTCCTGTGCGCTTCCATGAATACTCCTTCATCCATTTTCCAACTTACTGTTAGAACAATAGGATTACAGGCACATGCCATCACACCCATCCTTACTTTCTTCTAGAGATGTGAACTCAGGTCTGCATGGTTGCAGGGTAAGCCCTTGACCCACTGAGCTATCTTTCCAGGCCAGTAGCAGGTTTTTGATAGGAAAAGCACATGGCCATGTGTGGCAGCACATGCCTTAATCCAGTCAGTACTCAGAAGGCCGAAGCAGGCAGATCTCTGAGTTACACTCTAGTCTGGACTACAAAGCTGGATCCAGGACAGCCAGGGCTACACAGAGAAAGAAACCCTGTTTCGGAGGAAGAGAAAAGGGGAAGCACAGAAGTGATGTGTTTTTATTTTCCAGTTATGGTTTAAAATTTGGTGGAAGTATTGTATTTGAACCTTGACACACGTTAAGTTGCAGAAGGCTTTCTGGATGGTACACGTGCAGTCTTTTCCATTGTTGATATTATGCTCTCTGATCACTTAGTTGTGTTGGTGATGGCCAGGCCTTTTCAACAGGTCTGTCCTGGCTGTGAATTACCCCCACATAATAATACTAAGACTGAAGAACTCAAGAGCCAGGTGTAGAAGAGGGCTTGCATATGTGAACGAAAAAAATAAGCTAAAGCAATATGCCAAGGACTTTCTTCTATTTTATCGGTGCATTGTGCCCGTGAACAACCTTAAGAATGTTTGCTTATCTCTGGCTATTTATTTTTCTAAAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCCCGTGAACAACCTTA
59.82
CTACCCGGTAACAAGCTCCC
59.82
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCCCGTGAACAACCTTA
59.82
CCTACCCGGTAACAAGCTCC
59.82
151
PCR template sequence:
GCAATATGCCAAGGACTTTCTTCTATTTTATCGGTGCATTGTGCCCGTGAACAACCTTAAGAATGTTTGCTTATCTCTGGCTATTTATTTTTCTAAAACAGTAAATACCTCATTTGATTAACTTGTTTGTGTTGTGGAATACAATTTAATAGTGCATTGCTTTCTGCTGGGGAGCTTGTTACCGGGTAGGAAAATGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
35
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(2), mmu-miR-137-3p(1), mmu-miR-181a-5p(1), mmu-miR-135a-5p(1), mmu-miR-34a-5p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-335-5p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-203-3p(1), mmu-miR-339-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-434-3p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-212-3p(1), mmu-miR-483-5p(1), mmu-miR-301b-3p(1), mmu-miR-218-5p(1), mmu-miR-34b-5p(1), mmu-miR-301a-3p(1), mmu-miR-342-5p(1), mmu-miR-224-5p(1), mmu-miR-705(1), mmu-miR-27a-5p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-466b-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTTCTAAAACAGTAAATACCTCAT
siRNA sets
ATTTACTGTTTTAGAAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.898261771
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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