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mmu_circCuedc1_320
Basic information of circular RNA
PanCircBase ID:
mmu_circCuedc1_320
mm39_Chr. Position ID:
chr11|88073306|88074257|+
Gene name:
Cuedc1
Transcript:
ENSMUST00000018522.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,758
Genomic length:
951
Exon/intron sizes in nt:
1,27,193
Flanking exon/introns:
chr11:88068223-88073306|chr11:88074257-88075459
Splice length:
320
Other database IDs:
circAtlas: mmu-Cuedc1_0005
Human Ortholog IDs:
Mature spliced Sequence:
GATTGATGTCCCAGGCTCCGGACAACCTGCAAGCCAGAGACGCTACAGAAACTGGAACCCACCCCTGCTGGGCAGCCTCCCGGATGACTTCCTCCGAATCCTTCCCCAGCAGATGGACAGCATTCAGGGTCACCCCGGGGGCTCCAAGCCTATGAGTGGAGAGGGAGGCCCACCTCCGGCGCCAGGGCCCATGGCCTGTGACCAAGACAGCCGCTGGAAACAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCTCTTCCTGCAGAATG
60.03
GGGTGGGTTCCAGTTTCTGT
59.81
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCTCTTCCTGCAGAATGA
59.75
GGGTGGGTTCCAGTTTCTGT
59.81
140
PCR template sequence:
CAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAGGATTGATGTCCCAGGCTCCGGACAACCTGCAAGCCAGAGACGCTACAGAAACTGGAACCCACCCCTGCTGGGCAGCCTCCCGGATGACTTCCTCCGAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GCCCTGGAGAGAGGATTGATGTCCCA
siRNA sets
GACATCAATCCTCTCTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCUEDC1_320_ORF_1
0.7199
0.296096903
0.477711037
363
ORF sequence:
ATGGACAGCATTCAGGGTCACCCCGGGGGCTCCAAGCCTATGAGTGGAGAGGGAGGCCCACCTCCGGCGCCAGGGCCCATGGCCTGTGACCAAGACAGCCGCTGGAAACAGTACCTGGAAGATGAGAGAATTGCCCTCTTCCTGCAGAATGAGGAATTCATGAAGGAGCTGCAGCGAAACCGGGACTTCCTCCTCGCCCTGGAGAGAGGATTGATGTCCCAGGCTCCGGACAACCTGCAAGCCAGAGACGCTACAGAAACTGGAACCCACCCCTGCTGGGCAGCCTCCCGGATGACTTCCTCCGAATCCTTCCCCAGCAGATGGACAGCATTCAGGGTCACCCCGGGGGCTCCAAGCCTATGA
Peptide sequence:
MDSIQGHPGGSKPMSGEGGPPPAPGPMACDQDSRWKQYLEDERIALFLQNEEFMKELQRNRDFLLALERGLMSQAPDNLQARDATETGTHPCWAASRMTSSESFPSRWTAFRVTPGAPSL
IRESfinder result
IRESfinder score
0.275778036
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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