top of page
mmu_circCuedc1_448
Basic information of circular RNA
PanCircBase ID:
mmu_circCuedc1_448
mm39_Chr. Position ID:
chr11|88068095|88074257|+
Gene name:
Cuedc1
Transcript:
ENSMUST00000018522.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,5211,5969
Genomic length:
6162
Exon/intron sizes in nt:
12,81,27,193
Flanking exon/introns:
chr11:88061000-88068095|chr11:88074257-88075459
Splice length:
448
Other database IDs:
circAtlas: mmu-Cuedc1_0012
circBase: hsa_circ_0044746
Human Ortholog IDs:
Mature spliced Sequence:
ATCCTGGAAAGGACTCTGGAGCCCGATAGCTCTGAGGAAGAGCCCCCGCCTGTGTACTCACCACCAGCGTACCACATGCACGTGTTCGACAGGCCTTACCTGATGGCTCCTCCGACCCCACCTCCCCGGATTGATGTCCCAGGCTCCGGACAACCTGCAAGCCAGAGACGCTACAGAAACTGGAACCCACCCCTGCTGGGCAGCCTCCCGGATGACTTCCTCCGAATCCTTCCCCAGCAGATGGACAGCATTCAGGGTCACCCCGGGGGCTCCAAGCCTATGAGTGGAGAGGGAGGCCCACCTCCGGCGCCAGGGCCCATGGCCTGTGACCAAGACAGCCGCTGGAAACAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCTCTTCCTGCAGAATG
60.03
TCGAACACGTGCATGTGGTA
59.97
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCTCTTCCTGCAGAATG
60.03
GGTACGCTGGTGGTGAGTAC
60.11
150
PCR template sequence:
CAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAGATCCTGGAAAGGACTCTGGAGCCCGATAGCTCTGAGGAAGAGCCCCCGCCTGTGTACTCACCACCAGCGTACCACATGCACGTGTTCGACAGGCCTTACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCCTGGAGAGAGATCCTGGAAAGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCUEDC1_448_ORF_1
1.005
0.425357293
0.776421488
402
ORF sequence:
ATGCACGTGTTCGACAGGCCTTACCTGATGGCTCCTCCGACCCCACCTCCCCGGATTGATGTCCCAGGCTCCGGACAACCTGCAAGCCAGAGACGCTACAGAAACTGGAACCCACCCCTGCTGGGCAGCCTCCCGGATGACTTCCTCCGAATCCTTCCCCAGCAGATGGACAGCATTCAGGGTCACCCCGGGGGCTCCAAGCCTATGAGTGGAGAGGGAGGCCCACCTCCGGCGCCAGGGCCCATGGCCTGTGACCAAGACAGCCGCTGGAAACAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAGATCCTGGAAAGGACTCTGGAGCCCGATAG
Peptide sequence:
MHVFDRPYLMAPPTPPPRIDVPGSGQPASQRRYRNWNPPLLGSLPDDFLRILPQQMDSIQGHPGGSKPMSGEGGPPPAPGPMACDQDSRWKQYLEDERIALFLQNEEFMKELQRNRDFLLALERDPGKDSGAR
IRESfinder result
IRESfinder score
0.30478011
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page