top of page
mmu_ciCoa3_256
Basic information of circular RNA
PanCircBase ID:
mmu_ciCoa3_256
mm39_Chr. Position ID:
chr11|101169283|101169539|-
Gene name:
Coa3
Transcript:
ENSMUST00000017332.4
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
256
Exon/intron sizes in nt:
256
Flanking exon/introns:
chr11:101169278-101169539
Splice length:
256
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCGTCCTGGCTATACCGCATATGGGGTTAGGGAAAAGGGAACAAGACGTGTAGCTTTTAATGTGCGGGCAAATGAGGTTCATGCCTAATCTTACTATATATACGCAGCGCGTATTGGCTTAGTAATAACAATTGGTTAAGGGTTCAAAAGGAGCAAAAGGGTGGCAATCCAAAATCATTAATTTGGGAAAACAGCAAGGGTGGCTAGACGAAAGGAATGCCCATGTGCTTTGTGGTTTCCTGAACCCACTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACAGCAAGGGTGGCTAGAC
59.96
GGCATGAACCTCATTTGCCC
59.82
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAGCAAGGGTGGCTAGAC
59.96
CATGAACCTCATTTGCCCGC
60.18
150
PCR template sequence:
GCAAAAGGGTGGCAATCCAAAATCATTAATTTGGGAAAACAGCAAGGGTGGCTAGACGAAAGGAATGCCCATGTGCTTTGTGGTTTCCTGAACCCACTCCGTATCCGTCCTGGCTATACCGCATATGGGGTTAGGGAAAAGGGAACAAGACGTGTAGCTTTTAATGTGCGGGCAAATGAGGTTCATGCCTAATCTTACTA
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-137-3p(1), mmu-miR-204-5p(1), mmu-miR-434-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAACCCACTCCGTATCCGTCCTGG
siRNA sets
AGGACGGATACGGAGTGGG
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
0.366783676
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page