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mmu_circCcdc141_369
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc141_369
mm39_Chr. Position ID:
chr2|76871708|76872975|-
Gene name:
Ccdc141
Transcript:
ENSMUST00000049544.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
16,15
Exon/intron offsets:
0,1078
Genomic length:
1267
Exon/intron sizes in nt:
1,80,189
Flanking exon/introns:
chr2:76869929-76871708|chr2:76872975-76875003
Splice length:
369
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CAACTGCATGAGGATGTTCAGCAAATCACGAAAGAGTGGGAAGTGTTAAGCAGTCAGGGAGCTCCTCTGAAGGAGAAGGCTGAACAGCTGAAGGACCTTGTCCATCTCCACCGGAGGCAGCGAGAGCGAATCCAGGAATATGAGGAAATCCTATACAAGACAGTCCAGTTCCACCAGGTCAAGGAAGAGCTGGTCCATCTCATCAAACCAAGAGAACTGGAACTTCTAGCACAGCCCATGGAACTGGCAAGTTCTGAGGAGGTCCAGATGCAACTGGGCCGTTCGCAAGAAAGGCGGGCACATGTAGACCATCTCCATCAGCTGGCCCTGACCTTAGGAGTGGACATCATTTCATCCGTGCAACAACCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAAGGCGGGCACATGTA
59.96
GTCCTTCAGCTGTTCAGCCT
59.96
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAAGGCGGGCACATGTA
59.96
AGGAGCTCCCTGACTGCTTA
59.96
149
PCR template sequence:
GCAACTGGGCCGTTCGCAAGAAAGGCGGGCACATGTAGACCATCTCCATCAGCTGGCCCTGACCTTAGGAGTGGACATCATTTCATCCGTGCAACAACCTCAACTGCATGAGGATGTTCAGCAAATCACGAAAGAGTGGGAAGTGTTAAGCAGTCAGGGAGCTCCTCTGAAGGAGAAGGCTGAACAGCTGAAGGACCTTG
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-146a-5p(1), mmu-miR-203-3p(1), mmu-miR-24-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGTGCAACAACCTCAACTGCATGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC141_369_ORF_1
1.3114
0.338869744
0.898371381
501
ORF sequence:
ATGGAACTGGCAAGTTCTGAGGAGGTCCAGATGCAACTGGGCCGTTCGCAAGAAAGGCGGGCACATGTAGACCATCTCCATCAGCTGGCCCTGACCTTAGGAGTGGACATCATTTCATCCGTGCAACAACCTCAACTGCATGAGGATGTTCAGCAAATCACGAAAGAGTGGGAAGTGTTAAGCAGTCAGGGAGCTCCTCTGAAGGAGAAGGCTGAACAGCTGAAGGACCTTGTCCATCTCCACCGGAGGCAGCGAGAGCGAATCCAGGAATATGAGGAAATCCTATACAAGACAGTCCAGTTCCACCAGGTCAAGGAAGAGCTGGTCCATCTCATCAAACCAAGAGAACTGGAACTTCTAGCACAGCCCATGGAACTGGCAAGTTCTGAGGAGGTCCAGATGCAACTGGGCCGTTCGCAAGAAAGGCGGGCACATGTAGACCATCTCCATCAGCTGGCCCTGACCTTAGGAGTGGACATCATTTCATCCGTGCAACAACCT
Peptide sequence:
MELASSEEVQMQLGRSQERRAHVDHLHQLALTLGVDIISSVQQPQLHEDVQQITKEWEVLSSQGAPLKEKAEQLKDLVHLHRRQRERIQEYEEILYKTVQFHQVKEELVHLIKPRELELLAQPMELASSEEVQMQLGRSQERRAHVDHLHQLALTLGVDIISSVQQP
IRESfinder result
IRESfinder score
0.42193152
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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