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mmu_circCcdc149_701
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc149_701
mm39_Chr. Position ID:
chr5|52557426|52578181|-
Gene name:
Ccdc149
Transcript:
ENSMUST00000059428.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,2622,4032,4951,5891,20647
Genomic length:
20755
Exon/intron sizes in nt:
1,45,85,73,17,31,17,100
Flanking exon/introns:
chr5:52550089-52557426|chr5:52578181-52593039
Splice length:
701
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214893, circAtlas: mmu-Ccdc149_0013
CIRCpedia: HSA_CIRCpedia_174536
Human Ortholog IDs:
Mature spliced Sequence:
GCTAATCTTGCACAGCTGCTGAGAGAATCGCAGGACAGGACTAAGCATCTGGGAGAAGAGATTAAAGAACTTCGGCAGAGGCTTGGCGAGGTCCAGGGTGACAATAAGCTGTTGAGGATGACGATTGCCAAACAAAGGCTTGGAGATGAAGAAATCGGCATGAGGCACTTTGCAGCCCACGAGCGGGAAGACTTGGTTGAGCAGCTGGAGCGGGCTAAGGAACAGATAGAGTCGTTGGAGCATGACCTACAGGCCTCAGCGGATGAACTCCAGGATGTCAAGGAAGAGCGGGCTTCCTACCAGGACAAAGTGGACAGACTGAACCAGGAGCTCAACCACATCCTGGGTGGTCATGAGAACCGAATTATCGATGTGGATGCACTGTGCATGGAGAACAGATATCTCCAGGAGAGACTGAAACAACTCCACGAGGAGGTCAGCCTTCTGAAATCGAACATTGCCAAGTACAAGAATGCTCTCGAGAGACGGAAAAACTCCAAGAGCCAAGGCAAATCCAGCAGTAGTGCTCTGACTGGGGTCTTGTCTGCAAAGCAAGTTCAGGATCTGCTCTCTGAAGACCATGGGTGCAGCCTCCCAGCTACTCCTCAGTCCATCGCTGACCTGAAGTCTTTGGCCACTGCCCTGCTGGAGACGATCCATGAGAAAAATATGGTCATTCAGCATCAGAGGCAAACCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCTCAGTCCATCGCTGAC
59.9
ATGCTTAGTCCTGTCCTGCG
59.82
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGTCCATCGCTGACCTG
60.18
ATGCTTAGTCCTGTCCTGCG
59.82
145
PCR template sequence:
CTCCTCAGTCCATCGCTGACCTGAAGTCTTTGGCCACTGCCCTGCTGGAGACGATCCATGAGAAAAATATGGTCATTCAGCATCAGAGGCAAACCAACAGGCTAATCTTGCACAGCTGCTGAGAGAATCGCAGGACAGGACTAAGCATCTGGGAGAAGAGATTAAAGAACTTCGGCAGAGGCTTGGCGAGGTCCAGGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(2), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-128-3p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GGCAAACCAACAGGCTAATCTTGCAC
siRNA sets
TGCAAGATTAGCCTGTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC149_701_ORF_1
1.3011
0.386311086
0.956738544
606
ORF sequence:
ATGACGATTGCCAAACAAAGGCTTGGAGATGAAGAAATCGGCATGAGGCACTTTGCAGCCCACGAGCGGGAAGACTTGGTTGAGCAGCTGGAGCGGGCTAAGGAACAGATAGAGTCGTTGGAGCATGACCTACAGGCCTCAGCGGATGAACTCCAGGATGTCAAGGAAGAGCGGGCTTCCTACCAGGACAAAGTGGACAGACTGAACCAGGAGCTCAACCACATCCTGGGTGGTCATGAGAACCGAATTATCGATGTGGATGCACTGTGCATGGAGAACAGATATCTCCAGGAGAGACTGAAACAACTCCACGAGGAGGTCAGCCTTCTGAAATCGAACATTGCCAAGTACAAGAATGCTCTCGAGAGACGGAAAAACTCCAAGAGCCAAGGCAAATCCAGCAGTAGTGCTCTGACTGGGGTCTTGTCTGCAAAGCAAGTTCAGGATCTGCTCTCTGAAGACCATGGGTGCAGCCTCCCAGCTACTCCTCAGTCCATCGCTGACCTGAAGTCTTTGGCCACTGCCCTGCTGGAGACGATCCATGAGAAAAATATGGTCATTCAGCATCAGAGGCAAACCAACAGGCTAATCTTGCACAGCTGCTGA
Peptide sequence:
MTIAKQRLGDEEIGMRHFAAHEREDLVEQLERAKEQIESLEHDLQASADELQDVKEERASYQDKVDRLNQELNHILGGHENRIIDVDALCMENRYLQERLKQLHEEVSLLKSNIAKYKNALERRKNSKSQGKSSSSALTGVLSAKQVQDLLSEDHGCSLPATPQSIADLKSLATALLETIHEKNMVIQHQRQTNRLILHSC
IRESfinder result
IRESfinder score
0.32167903
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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