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mmu_circCct6a_729
Basic information of circular RNA
PanCircBase ID:
mmu_circCct6a_729
mm39_Chr. Position ID:
chr5|129866880|129870795|+
Gene name:
Cct6a
Transcript:
ENSMUST00000201414.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,767,1652,1965,2202,3818
Genomic length:
3915
Exon/intron sizes in nt:
174,104,111,160,83,97
Flanking exon/introns:
chr5:129866251-129866880|chr5:129870795-129871414
Splice length:
729
Other database IDs:
circAtlas: mmu-Cct6a_0006
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_58325
Human Ortholog IDs:
Mature spliced Sequence:
GGTCTTCACCCAAGAATAATAACTGAAGGTTTTGAAGCGGCAAAAGAAAAGGCACTCCAATTTCTGGAACAAGTCAAAGTAAGCAAAGAGATGGACAGAGAAACACTCATCGATGTGGCGAGGACATCTCTGCGGACTAAAGTTCATGCTGAACTTGCAGATGTCTTGACAGAGGCTGTAGTGGACTCCATCTTGGCCATTAGGAAAAAGGACGAGCCCATTGACCTCTTCATGGTTGAGATCATGGAGATGAAGCATAAATCTGAGACAGATACAAGCTTAATCAGAGGGCTTGTTTTGGATCATGGAGCTCGGCATCCTGATATGAAGAAGAGAGTGGAAAATGCCTACATCCTCACTTGCAACGTGTCCTTAGAGTATGAGAAAACAGAAGTGAATTCTGGGTTTTTTTACAAGAGTGCAGAAGAGAGAGAAAAACTAGTAAAGGCTGAAAGAAAATTCATTGAAGATAGAGTTAAAAAAATCATAGAGCTGAAAAAGAAAGTCTGTGGTGACTCAGATAAAGGATTTGTCGTTATTAATCAAAAGGGGATTGACCCCTTTTCCTTAGATGCCCTTGCGAAAGAAGGGATCGTAGCTCTGCGCAGAGCCAAGAGGAGAAACATGGAGAGGCTGACACTTGCTTGTGGTGGGATAGCTCTGAATTCCTTTGATGACCTGAATCCTGACTGTTTGGGACATGCAGAGCTTGTCTATGAGTATACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGACACTTGCTTGTGGTG
59.97
GTGCCTTTTCTTTTGCCGCT
60.25
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGACACTTGCTTGTGGTG
59.97
AGTGCCTTTTCTTTTGCCGC
60.25
153
PCR template sequence:
GAGGCTGACACTTGCTTGTGGTGGGATAGCTCTGAATTCCTTTGATGACCTGAATCCTGACTGTTTGGGACATGCAGAGCTTGTCTATGAGTATACACTGGGTCTTCACCCAAGAATAATAACTGAAGGTTTTGAAGCGGCAAAAGAAAAGGCACTCCAATTTCTGGAACAAGTCAAAGTAAGCAAAGAGATGGACAGAG
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-212-3p(1), mmu-miR-680(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGTATACACTGGGTCTTCACCCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCT6A_729_ORF_1
1.1096
0.186742962
0.999402243
1368
ORF sequence:
ATGGACAGAGAAACACTCATCGATGTGGCGAGGACATCTCTGCGGACTAAAGTTCATGCTGAACTTGCAGATGTCTTGACAGAGGCTGTAGTGGACTCCATCTTGGCCATTAGGAAAAAGGACGAGCCCATTGACCTCTTCATGGTTGAGATCATGGAGATGAAGCATAAATCTGAGACAGATACAAGCTTAATCAGAGGGCTTGTTTTGGATCATGGAGCTCGGCATCCTGATATGAAGAAGAGAGTGGAAAATGCCTACATCCTCACTTGCAACGTGTCCTTAGAGTATGAGAAAACAGAAGTGAATTCTGGGTTTTTTTACAAGAGTGCAGAAGAGAGAGAAAAACTAGTAAAGGCTGAAAGAAAATTCATTGAAGATAGAGTTAAAAAAATCATAGAGCTGAAAAAGAAAGTCTGTGGTGACTCAGATAAAGGATTTGTCGTTATTAATCAAAAGGGGATTGACCCCTTTTCCTTAGATGCCCTTGCGAAAGAAGGGATCGTAGCTCTGCGCAGAGCCAAGAGGAGAAACATGGAGAGGCTGACACTTGCTTGTGGTGGGATAGCTCTGAATTCCTTTGATGACCTGAATCCTGACTGTTTGGGACATGCAGAGCTTGTCTATGAGTATACACTGGGTCTTCACCCAAGAATAATAACTGAAGGTTTTGAAGCGGCAAAAGAAAAGGCACTCCAATTTCTGGAACAAGTCAAAGTAAGCAAAGAGATGGACAGAGAAACACTCATCGATGTGGCGAGGACATCTCTGCGGACTAAAGTTCATGCTGAACTTGCAGATGTCTTGACAGAGGCTGTAGTGGACTCCATCTTGGCCATTAGGAAAAAGGACGAGCCCATTGACCTCTTCATGGTTGAGATCATGGAGATGAAGCATAAATCTGAGACAGATACAAGCTTAATCAGAGGGCTTGTTTTGGATCATGGAGCTCGGCATCCTGATATGAAGAAGAGAGTGGAAAATGCCTACATCCTCACTTGCAACGTGTCCTTAGAGTATGAGAAAACAGAAGTGAATTCTGGGTTTTTTTACAAGAGTGCAGAAGAGAGAGAAAAACTAGTAAAGGCTGAAAGAAAATTCATTGAAGATAGAGTTAAAAAAATCATAGAGCTGAAAAAGAAAGTCTGTGGTGACTCAGATAAAGGATTTGTCGTTATTAATCAAAAGGGGATTGACCCCTTTTCCTTAGATGCCCTTGCGAAAGAAGGGATCGTAGCTCTGCGCAGAGCCAAGAGGAGAAACATGGAGAGGCTGACACTTGCTTGTGGTGGGATAGCTCTGAATTCCTTTGATGACCTGAATCCTGACTGTTTGGGACATGCAGAGCTTGTCTATGAGTATACACTG
Peptide sequence:
MDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIRKKDEPIDLFMVEIMEMKHKSETDTSLIRGLVLDHGARHPDMKKRVENAYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKKKVCGDSDKGFVVINQKGIDPFSLDALAKEGIVALRRAKRRNMERLTLACGGIALNSFDDLNPDCLGHAELVYEYTLGLHPRIITEGFEAAKEKALQFLEQVKVSKEMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIRKKDEPIDLFMVEIMEMKHKSETDTSLIRGLVLDHGARHPDMKKRVENAYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKKKVCGDSDKGFVVINQKGIDPFSLDALAKEGIVALRRAKRRNMERLTLACGGIALNSFDDLNPDCLGHAELVYEYTL
IRESfinder result
IRESfinder score
0.57566159
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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