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mmu_ciCdon_482
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdon_482
mm39_Chr. Position ID:
chr9|35363473|35363955|+
Gene name:
Cdon
Transcript:
ENSMUST00000151682.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
482
Exon/intron sizes in nt:
482
Flanking exon/introns:
chr9:35363473-35363956
Splice length:
482
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATAATTCATTGAGCAGCATTTATTACCTGTTTACAAAAAACTGTACGGGCCTGGCATAATGGCACATCTTTAATCCCAGCACTGGGGAGGCAGAGGTAGTCGAATCTCTGTGAGTTCAAGGCCAGCCTGGTCCACCAATCAAAACCAGGACAGTCAGGACTCTTATATAGAGAAACTCTGCCTCAAAAACTGGGGGTGGGGGATGGGGAAGATGGACCTATGAATTATCAGGATTAAGAGCTACCACATATAGAGATGAAAGACTGTCTTGGTCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTCCTTGTATCTCCGG
59.31
CACACACACACACACACACA
59.13
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTCCTTGTATCTCCGG
59.31
CACACACACACACACACACA
59.13
143
PCR template sequence:
GTCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(2), mmu-miR-466b-3p(2), mmu-miR-709(1), mmu-miR-381-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-340-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGTTCCGTTGTAGTAAGAGGAGAAT
siRNA sets
TCTTACTACAACGGAACGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICDON_482_ORF_1
0.8615
-0.413952
0.026533678
243
ORF sequence:
ATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATAATTCATTGAGCAGCATTTATTACCTGTTTACAAAAAACTGTACGGGCCTGGCATAA
Peptide sequence:
MYFFLCFLNLPPCISGLHPGTFRCSKRRMMRPGLMPFFLIFLLYTYVRMCVCVCVCVCVCVYNSLSSIYYLFTKNCTGLA
IRESfinder result
IRESfinder score
0.776498515
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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