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mmu_circCnot1_426
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot1_426
mm39_Chr. Position ID:
chr8|96483969|96487253|-
Gene name:
Cnot1
Transcript:
ENSMUST00000098473.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
17,16,15
Exon/intron offsets:
0,2757,3161
Genomic length:
3284
Exon/intron sizes in nt:
15,11,52,123
Flanking exon/introns:
chr8:96482921-96483969|chr8:96487253-96487950
Splice length:
426
Other database IDs:
circAtlas: mmu-Cnot1_0051
circBase: hsa_circ_0039677
Human Ortholog IDs:
Mature spliced Sequence:
GCCCTGTCGATGCTGCTGAACGGCACTCCATTTGCTTTTGTCATTGACCTTGCTGCACTCGCTTCACGGCGGGAATACCTCAAACTTGACAAGTGGCTAACAGATAAGATAAGAGAGCATGGGGAGCCTTTTATACAAGCATGTATGACTTTTTTAAAGAGAAGGTGCCCTTCTATTTTGGGTGGACTTGCCCCAGAGAAAGATCAGCCCAAAAGTGCTCAACTTCCCGCTGAAACTCTGGCAACAATGTTGGCTTGTCTGCAGGCTTGTGCAGGGAGTGTTTCTCAAGAGTTATCAGAGACCATCCTCACCATGGTAGCCAATTGCAGTAATGTAATGAATAAGGCCAGACAGCCACCACCTGGAGTTATGCCAAAAGGTCGCCCTCCTAGTGCTAGCAGCTTAGATGCCATTTCTCCTGTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTATGCCAAAAGGTCGCCCT
59.96
AGTTTGAGGTATTCCCGCCG
60.11
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAAGGTCGCCCTCCTAG
60.11
AGTTTGAGGTATTCCCGCCG
60.11
140
PCR template sequence:
CAGTAATGTAATGAATAAGGCCAGACAGCCACCACCTGGAGTTATGCCAAAAGGTCGCCCTCCTAGTGCTAGCAGCTTAGATGCCATTTCTCCTGTTCAGGCCCTGTCGATGCTGCTGAACGGCACTCCATTTGCTTTTGTCATTGACCTTGCTGCACTCGCTTCACGGCGGGAATACCTCAAACTTGACAAGTGGCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-326-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTCCTGTTCAGGCCCTGTCGATGC
siRNA sets
ATCGACAGGGCCTGAACAG, CATCGACAGGGCCTGAACA, GACAGGGCCTGAACAGGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT1_426_ORF_1
1.0243
0.024912227
0.944119228
843
ORF sequence:
ATGCTGCTGAACGGCACTCCATTTGCTTTTGTCATTGACCTTGCTGCACTCGCTTCACGGCGGGAATACCTCAAACTTGACAAGTGGCTAACAGATAAGATAAGAGAGCATGGGGAGCCTTTTATACAAGCATGTATGACTTTTTTAAAGAGAAGGTGCCCTTCTATTTTGGGTGGACTTGCCCCAGAGAAAGATCAGCCCAAAAGTGCTCAACTTCCCGCTGAAACTCTGGCAACAATGTTGGCTTGTCTGCAGGCTTGTGCAGGGAGTGTTTCTCAAGAGTTATCAGAGACCATCCTCACCATGGTAGCCAATTGCAGTAATGTAATGAATAAGGCCAGACAGCCACCACCTGGAGTTATGCCAAAAGGTCGCCCTCCTAGTGCTAGCAGCTTAGATGCCATTTCTCCTGTTCAGGCCCTGTCGATGCTGCTGAACGGCACTCCATTTGCTTTTGTCATTGACCTTGCTGCACTCGCTTCACGGCGGGAATACCTCAAACTTGACAAGTGGCTAACAGATAAGATAAGAGAGCATGGGGAGCCTTTTATACAAGCATGTATGACTTTTTTAAAGAGAAGGTGCCCTTCTATTTTGGGTGGACTTGCCCCAGAGAAAGATCAGCCCAAAAGTGCTCAACTTCCCGCTGAAACTCTGGCAACAATGTTGGCTTGTCTGCAGGCTTGTGCAGGGAGTGTTTCTCAAGAGTTATCAGAGACCATCCTCACCATGGTAGCCAATTGCAGTAATGTAATGAATAAGGCCAGACAGCCACCACCTGGAGTTATGCCAAAAGGTCGCCCTCCTAGTGCTAGCAGCTTAGATGCCATTTCTCCTGTTCAG
Peptide sequence:
MLLNGTPFAFVIDLAALASRREYLKLDKWLTDKIREHGEPFIQACMTFLKRRCPSILGGLAPEKDQPKSAQLPAETLATMLACLQACAGSVSQELSETILTMVANCSNVMNKARQPPPGVMPKGRPPSASSLDAISPVQALSMLLNGTPFAFVIDLAALASRREYLKLDKWLTDKIREHGEPFIQACMTFLKRRCPSILGGLAPEKDQPKSAQLPAETLATMLACLQACAGSVSQELSETILTMVANCSNVMNKARQPPPGVMPKGRPPSASSLDAISPVQ
IRESfinder result
IRESfinder score
0.557917933
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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