top of page
mmu_ciCdon_483
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdon_483
mm39_Chr. Position ID:
chr9|35363473|35363956|+
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:
483
Exon/intron sizes in nt:
483
Flanking exon/introns:
chr9:35363473-35363956
Splice length:
483
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATAATTCATTGAGCAGCATTTATTACCTGTTTACAAAAAACTGTACGGGCCTGGCATAATGGCACATCTTTAATCCCAGCACTGGGGAGGCAGAGGTAGTCGAATCTCTGTGAGTTCAAGGCCAGCCTGGTCCACCAATCAAAACCAGGACAGTCAGGACTCTTATATAGAGAAACTCTGCCTCAAAAACTGGGGGTGGGGGATGGGGAAGATGGACCTATGAATTATCAGGATTAAGAGCTACCACATATAGAGATGAAAGACTGTCTTGGTCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTCCTTGTATCTCCGG
59.31
CACACACACACACACACACA
59.13
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTCCTTGTATCTCCGG
59.31
CACACACACACACACACACA
59.13
142
PCR template sequence:
TCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGGTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTG
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
CGTTCCGTTGTAGGTAAGAGGAGAAT
siRNA sets
TCTCCTCTTACCTACAACG, ATTCTCCTCTTACCTACAA, TTCTCCTCTTACCTACAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICDON_483_ORF_3
0.7495
-0.534345074
0.004095722
78
ORF sequence:
ATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGGTAA
Peptide sequence:
MYFFLCFLNLPPCISGLHPGTFRCR
IRESfinder result
IRESfinder score
0.77640556
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page