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mmu_circCcdc62_581
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc62_581
mm39_Chr. Position ID:
chr5|124076212|124089930|+
Gene name:
Ccdc62
Transcript:
ENSMUST00000094320.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,5984,8204,13049,13602
Genomic length:
13718
Exon/intron sizes in nt:
1,02,17,21,02,89,116
Flanking exon/introns:
chr5:124074618-124076212|chr5:124089930-124092119
Splice length:
581
Other database IDs:
circAtlas: mmu-Ccdc62_0017
circAtlas: hsa-CCDC62_0011
Human Ortholog IDs:
Mature spliced Sequence:
GCTAGAAATGAAAATCTCAGCAGCACGTTAGTGGACCTCTCTGCTCAGGTAGGACAATTGCAAGCTAGAGAGCAGGCTCTCACTACCATGATAAAGCTAAAGGACAAAGACATTATTGAGGCCGTCAATCACATTTCAGACTGCTCGGGTAAATTTAAATTGTTAGAGCACGCTTTACGTGATGCCAAGATGGCGGAGACGTGTGTGGTGAGAGAAAAGCAAGATTATAAGCAGAAATTGAAGGCACTTAGGATTGAAGTCAATAAACTGAAAGAGGATCTAAATGAGAAGACAACAGAAAACAATGAACAACGAGAGGAGATAATTCGACTCAAGCAAGAGAAAAGCTGTCTACATGATGAGCTAATTTTTACTGTTGAGAGGGAAAAGAGGAAAGATGAATTACTTGATATTGCAAAGTCAAAGCAAGATCGTACAAATTCCGAGCTCCAGAATCTGAGACAGATTTATGTAAAACAGCAGAGTGACCTGCAGTTTCTTAATTTCAATATAGAAAGTTCTCAGGAATTAATACAAATACATGGCTTAAAGATGGAGGAACCAAAGGCCCTGGAGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGACCTGCAGTTTCTT
56.69
AGAGGTCCACTAACGTGCTG
59.4
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGACCTGCAGTTTCTT
56.69
CCTGAGCAGAGAGGTCCACT
60.61
149
PCR template sequence:
AGAGTGACCTGCAGTTTCTTAATTTCAATATAGAAAGTTCTCAGGAATTAATACAAATACATGGCTTAAAGATGGAGGAACCAAAGGCCCTGGAGTGCAGGCTAGAAATGAAAATCTCAGCAGCACGTTAGTGGACCTCTCTGCTCAGGTAGGACAATTGCAAGCTAGAGAGCAGGCTCTCACTACCATGATAAAGCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-467b-5p(1), mmu-miR-3105-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTGGAGTGCAGGCTAGAAATGAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC62_581_ORF_1
1.1872
0.136822644
0.783383401
525
ORF sequence:
ATGATAAAGCTAAAGGACAAAGACATTATTGAGGCCGTCAATCACATTTCAGACTGCTCGGGTAAATTTAAATTGTTAGAGCACGCTTTACGTGATGCCAAGATGGCGGAGACGTGTGTGGTGAGAGAAAAGCAAGATTATAAGCAGAAATTGAAGGCACTTAGGATTGAAGTCAATAAACTGAAAGAGGATCTAAATGAGAAGACAACAGAAAACAATGAACAACGAGAGGAGATAATTCGACTCAAGCAAGAGAAAAGCTGTCTACATGATGAGCTAATTTTTACTGTTGAGAGGGAAAAGAGGAAAGATGAATTACTTGATATTGCAAAGTCAAAGCAAGATCGTACAAATTCCGAGCTCCAGAATCTGAGACAGATTTATGTAAAACAGCAGAGTGACCTGCAGTTTCTTAATTTCAATATAGAAAGTTCTCAGGAATTAATACAAATACATGGCTTAAAGATGGAGGAACCAAAGGCCCTGGAGTGCAGGCTAGAAATGAAAATCTCAGCAGCACGTTAG
Peptide sequence:
MIKLKDKDIIEAVNHISDCSGKFKLLEHALRDAKMAETCVVREKQDYKQKLKALRIEVNKLKEDLNEKTTENNEQREEIIRLKQEKSCLHDELIFTVEREKRKDELLDIAKSKQDRTNSELQNLRQIYVKQQSDLQFLNFNIESSQELIQIHGLKMEEPKALECRLEMKISAAR
IRESfinder result
IRESfinder score
0.545702786
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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