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mmu_ciCir1_414
Basic information of circular RNA
PanCircBase ID:
mmu_ciCir1_414
mm39_Chr. Position ID:
chr2|73136784|73137198|-
Gene name:
Cir1
Transcript:
ENSMUST00000058615.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
414
Exon/intron sizes in nt:
414
Flanking exon/introns:
chr2:73136782-73137198
Splice length:
414
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACCCGCCTCGTTTCCTTTGAGCTTTGATGTAATTACCTGTAAAGAGTTAGAAGAGGGGACAGTATTTTAATTTTGATTTGTATTTTTCCATTGCTGTTGCTCTAACAATGTTGTCATGTGCAAAGCAAAATAAACAGTTTCTAATGTTTCTTATGTGCTTTGGAGGAAAATGCTCAATACTGGCAGAGGTACATTCAGCCCTCTCATAATGTAAACATACCTGTGGTCCTTATTAAAATAAATCTCCAAATGGAAAGTCTACTCATTGCCAGTGAAAACATAAAAGCTTAAAAATTAGGAACTAAACTGCCTATTCTGAACGATATTTCAGTGTTGTATTATATCCGTCAGTGATAAGTAGTAGACATTCTAACTTGTCCTGTTTCCCTCCTGTGCTTTGAATATGCAATCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTGTCCTGTTTCCCTCCTG
59.58
AACAGCAATGGAAAAATACAAATCA
56.73
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACTTGTCCTGTTTCCCTCCT
58.86
ACAGCAATGGAAAAATACAAATCA
56.07
140
PCR template sequence:
ATTCTGAACGATATTTCAGTGTTGTATTATATCCGTCAGTGATAAGTAGTAGACATTCTAACTTGTCCTGTTTCCCTCCTGTGCTTTGAATATGCAATCAGTACCCGCCTCGTTTCCTTTGAGCTTTGATGTAATTACCTGTAAAGAGTTAGAAGAGGGGACAGTATTTTAATTTTGATTTGTATTTTTCCATTGCTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-429-3p(1), mmu-miR-182-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATATGCAATCAGTACCCGCCTCGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICIR1_414_ORF_3
0.8562
-0.279896885
0.014342421
81
ORF sequence:
ATGCAATCAGTACCCGCCTCGTTTCCTTTGAGCTTTGATGTAATTACCTGTAAAGAGTTAGAAGAGGGGACAGTATTTTAA
Peptide sequence:
MQSVPASFPLSFDVITCKELEEGTVF
IRESfinder result
IRESfinder score
0.868214299
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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