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mmu_circCnot6l_432
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot6l_432
mm39_Chr. Position ID:
chr5|96246103|96279104|-
Gene name:
Cnot6l
Transcript:
ENSMUST00000155901.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,7971,30698,32814
Genomic length:
33001
Exon/intron sizes in nt:
69,90,86,187
Flanking exon/introns:
chr5:96242177-96246103|chr5:96279104-96281869
Splice length:
432
Other database IDs:
circAtlas: mmu-Cnot6l_0029
Human Ortholog IDs:
Mature spliced Sequence:
GTAGAGTGCGGAGCTTAAGTACATCACTCTGGTCATTAACACACTTGACAGCACTGCACCTAAATGACAATAACCTTGCTCGCATTCCACCTGATATTGCCAAGCTTCATAATCTGGTTTACCTGGATCTGTCATCCAATAAACTCAGAAGTTTACCAGCAGAACTAGGAAACATGGTGTCTCTCAGGGAATTGCTTTTAAATGACAATTATTTACGGGTGTTGCCTTATGAACTTGGCCGGCTCTTCCAGCTACAAACTCTAGGTTTAACAGGCAATCCTTTATCACAGGATATTATGAGCTTATACCAGGACCCAGATGGAACCCGAAAGCTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCGAGGCCATGGATTAC
59.96
ATCAGGTGGAATGCGAGCAA
60.04
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCCGAGGCCATGGATTA
60.11
ATCAGGTGGAATGCGAGCAA
60.04
148
PCR template sequence:
CTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCAGGTAGAGTGCGGAGCTTAAGTACATCACTCTGGTCATTAACACACTTGACAGCACTGCACCTAAATGACAATAACCTTGCTCGCATTCCACCTGATATTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-670-5p(1), mmu-miR-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCTGCCATCAGGTAGAGTGCGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT6L_432_ORF_1
0.9182
0.008185805
0.811065632
690
ORF sequence:
ATGGTGTCTCTCAGGGAATTGCTTTTAAATGACAATTATTTACGGGTGTTGCCTTATGAACTTGGCCGGCTCTTCCAGCTACAAACTCTAGGTTTAACAGGCAATCCTTTATCACAGGATATTATGAGCTTATACCAGGACCCAGATGGAACCCGAAAGCTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCAGGTAGAGTGCGGAGCTTAAGTACATCACTCTGGTCATTAACACACTTGACAGCACTGCACCTAAATGACAATAACCTTGCTCGCATTCCACCTGATATTGCCAAGCTTCATAATCTGGTTTACCTGGATCTGTCATCCAATAAACTCAGAAGTTTACCAGCAGAACTAGGAAACATGGTGTCTCTCAGGGAATTGCTTTTAAATGACAATTATTTACGGGTGTTGCCTTATGAACTTGGCCGGCTCTTCCAGCTACAAACTCTAGGTTTAACAGGCAATCCTTTATCACAGGATATTATGAGCTTATACCAGGACCCAGATGGAACCCGAAAGCTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCA
Peptide sequence:
MVSLRELLLNDNYLRVLPYELGRLFQLQTLGLTGNPLSQDIMSLYQDPDGTRKLLNFMLDNLAVHPEQLPPRPWITLKERDQILPSGRVRSLSTSLWSLTHLTALHLNDNNLARIPPDIAKLHNLVYLDLSSNKLRSLPAELGNMVSLRELLLNDNYLRVLPYELGRLFQLQTLGLTGNPLSQDIMSLYQDPDGTRKLLNFMLDNLAVHPEQLPPRPWITLKERDQILPS
IRESfinder result
IRESfinder score
0.800482952
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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