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mmu_ciCnot9_490
Basic information of circular RNA
PanCircBase ID:
mmu_ciCnot9_490
mm39_Chr. Position ID:
chr1|74566249|74566739|+
Gene name:
Cnot9
Transcript:
ENSMUST00000087215.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
490
Exon/intron sizes in nt:
490
Flanking exon/introns:
chr1:74566249-74566750
Splice length:
490
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTTCTTTCCTTTACTCTCTTTGCAGTTTACTTCCATCACAAAACTTAGTCCCTTCGTTACTGACCCAAAACTTTGTCTTCTAACTAGAAATAACACTTGGCCAGGTACGATGGTATATGCCTGTCATCCTAGTATCTATAAGGCAGAGGGATGCAAGAGGATGCCTGTGGGCTTGGAGCAGCAGCATGGGTTTCTCACCAGCCAAATGAAGAAGTAGTGTCCTAGCCCAAAAATACTAGCTGGAATGGTAGTGTGTGTCTTTAATCCCAGAGCTGTGGTAGCAGAGGCAGGCAGATCTCTTTGAGGTTGAGTCCAGCCTGATCTATATAGCAAGTGCTTGGCTAGCCAAGACTACAGGAAATATAGAGACCCTTTCTCAAATGGGGGGGGGGGGGGTAACGGAAACTTTATAATGATTCTTAGATGATCTGGTCTCTGGTGTCATTTCGAATTACTTTGTGACTTTTCCCCCCCTACCTTTGTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGATCTGGTCTCTGGTGTC
58.97
GTTTTGGGTCAGTAACGAAGGG
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGATCTGGTCTCTGGTGT
57.89
GTTTTGGGTCAGTAACGAAGGG
59.45
140
PCR template sequence:
GGGGGGGGGGTAACGGAAACTTTATAATGATTCTTAGATGATCTGGTCTCTGGTGTCATTTCGAATTACTTTGTGACTTTTCCCCCCCTACCTTTGTTTTGTGAGTTCTTTCCTTTACTCTCTTTGCAGTTTACTTCCATCACAAAACTTAGTCCCTTCGTTACTGACCCAAAACTTTGTCTTCTAACTAGAAATAACAC
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-138-5p(1), mmu-miR-224-5p(1), mmu-miR-802-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACCTTTGTTTTGTGAGTTCTTTCC
siRNA sets
AAGAACTCACAAAACAAAG,AACTCACAAAACAAAGGTA,AAAGAACTCACAAAACAAA
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
0.839232608
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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