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mmu_circArhgef33_287
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef33_287
mm39_Chr. Position ID:
chr17|80654549|80655158|+
Gene name:
Arhgef33
Transcript:
ENSMUST00000068175.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,487
Genomic length:
609
Exon/intron sizes in nt:
1,65,122
Flanking exon/introns:
chr17:80644747-80654549|chr17:80655158-80656848
Splice length:
287
Other database IDs:
circAtlas: mmu-Arhgef33_0029
Human Ortholog IDs:
Mature spliced Sequence:
CTGCAGGCCCTGGCCTCGGAACTGAAAACGGGCTTCACAGAAGCAATGCAGGAGCTGACACGGATCCAACATGGAGAATACGCTTTGGAAGAGAAGGTCAAGAGCTGCCGATGTTCAATGGAAGAGAAAGTCACGGAGATGAAGAATTCATTAAACTACTTCAAGGAAGAGCTGAGCAATGCAATGTCCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCATCACTTCCAAGCAA
59.89
TGTTGGATCCGTGTCAGCTC
60.04
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCATCACTTCCAAGCAA
59.89
AGCTCCTGCATTGCTTCTGT
59.96
147
PCR template sequence:
CCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAACTGCAGGCCCTGGCCTCGGAACTGAAAACGGGCTTCACAGAAGCAATGCAGGAGCTGACACGGATCCAACATGGAGAATACGCTTTGGAAGAGAAGGTCA
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-196a-5p(1), mmu-miR-127-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTCAAAGCCAACTGCAGGCCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF33_287_ORF_1
0.9225
0.354615089
0.776047192
462
ORF sequence:
ATGTTCAATGGAAGAGAAAGTCACGGAGATGAAGAATTCATTAAACTACTTCAAGGAAGAGCTGAGCAATGCAATGTCCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAACTGCAGGCCCTGGCCTCGGAACTGAAAACGGGCTTCACAGAAGCAATGCAGGAGCTGACACGGATCCAACATGGAGAATACGCTTTGGAAGAGAAGGTCAAGAGCTGCCGATGTTCAATGGAAGAGAAAGTCACGGAGATGAAGAATTCATTAAACTACTTCAAGGAAGAGCTGAGCAATGCAATGTCCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCC
Peptide sequence:
MFNGRESHGDEEFIKLLQGRAEQCNVHDSGHHFQARRNAAENRTAAAGEEKRISKGQSQLQALASELKTGFTEAMQELTRIQHGEYALEEKVKSCRCSMEEKVTEMKNSLNYFKEELSNAMSMIQAITSKQEEMQQKIEQLQQEKRRESRKVKA
IRESfinder result
IRESfinder score
0.284506778
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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