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mmu_circCcdc149_787
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc149_787
mm39_Chr. Position ID:
chr5|52542446|52563434|-
Gene name:
Ccdc149
Transcript:
ENSMUST00000059428.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,10,9,8,7,6,5
Exon/intron offsets:
0,7566,14980,17602,19012,19931,20871
Genomic length:
20988
Exon/intron sizes in nt:
1,17,77,14,58,57,31,73,000
Flanking exon/introns:
chr5:52534020-52542446|chr5:52563434-52578073
Splice length:
787
Other database IDs:
circAtlas: mmu-Ccdc149_0012
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_68801
Human Ortholog IDs:
Mature spliced Sequence:
CTGTTGAGGATGACGATTGCCAAACAAAGGCTTGGAGATGAAGAAATCGGCATGAGGCACTTTGCAGCCCACGAGCGGGAAGACTTGGTTGAGCAGCTGGAGCGGGCTAAGGAACAGATAGAGTCGTTGGAGCATGACCTACAGGCCTCAGCGGATGAACTCCAGGATGTCAAGGAAGAGCGGGCTTCCTACCAGGACAAAGTGGACAGACTGAACCAGGAGCTCAACCACATCCTGGGTGGTCATGAGAACCGAATTATCGATGTGGATGCACTGTGCATGGAGAACAGATATCTCCAGGAGAGACTGAAACAACTCCACGAGGAGGTCAGCCTTCTGAAATCGAACATTGCCAAGTACAAGAATGCTCTCGAGAGACGGAAAAACTCCAAGAGCCAAGGCAAATCCAGCAGTAGTGCTCTGACTGGGGTCTTGTCTGCAAAGCAAGTTCAGGATCTGCTCTCTGAAGACCATGGGTGCAGCCTCCCAGCTACTCCTCAGTCCATCGCTGACCTGAAGTCTTTGGCCACTGCCCTGCTGGAGACGATCCATGAGAAAAATATGGTCATTCAGCATCAGAGGCAAACCAACAGGATCCTAGGGAATCGAGTGGCAGAGCTGGAGAAGAAACTAAGAACTCTGGAAGTTTCTGGCTTGTGGAGTCTTCCAGGGGGCAAGGACACCATACTGCTCAATGATCAGACTCTCCCCACCATACAGAGGTCAAAGTCCCCACTGTTGAAGTTTGTGGAACAGTCCACCGACAACAAGGAGAGTGCCAGAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCCACCATACAGAGGTCA
59.58
TCAACCAAGTCTTCCCGCTC
59.97
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCCACCATACAGAGGTCA
59.58
CTCAACCAAGTCTTCCCGCT
59.96
174
PCR template sequence:
CTGCTCAATGATCAGACTCTCCCCACCATACAGAGGTCAAAGTCCCCACTGTTGAAGTTTGTGGAACAGTCCACCGACAACAAGGAGAGTGCCAGAGATGCTGTTGAGGATGACGATTGCCAAACAAAGGCTTGGAGATGAAGAAATCGGCATGAGGCACTTTGCAGCCCACGAGCGGGAAGACTTGGTTGAGCAGCTGG
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
AGTGCCAGAGATGCTGTTGAGGATGA
siRNA sets
ATCCTCAACAGCATCTCTG, CCTCAACAGCATCTCTGGC, TCATCCTCAACAGCATCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC149_787_ORF_1
1.2471
0.362197742
0.988229453
819
ORF sequence:
ATGACGATTGCCAAACAAAGGCTTGGAGATGAAGAAATCGGCATGAGGCACTTTGCAGCCCACGAGCGGGAAGACTTGGTTGAGCAGCTGGAGCGGGCTAAGGAACAGATAGAGTCGTTGGAGCATGACCTACAGGCCTCAGCGGATGAACTCCAGGATGTCAAGGAAGAGCGGGCTTCCTACCAGGACAAAGTGGACAGACTGAACCAGGAGCTCAACCACATCCTGGGTGGTCATGAGAACCGAATTATCGATGTGGATGCACTGTGCATGGAGAACAGATATCTCCAGGAGAGACTGAAACAACTCCACGAGGAGGTCAGCCTTCTGAAATCGAACATTGCCAAGTACAAGAATGCTCTCGAGAGACGGAAAAACTCCAAGAGCCAAGGCAAATCCAGCAGTAGTGCTCTGACTGGGGTCTTGTCTGCAAAGCAAGTTCAGGATCTGCTCTCTGAAGACCATGGGTGCAGCCTCCCAGCTACTCCTCAGTCCATCGCTGACCTGAAGTCTTTGGCCACTGCCCTGCTGGAGACGATCCATGAGAAAAATATGGTCATTCAGCATCAGAGGCAAACCAACAGGATCCTAGGGAATCGAGTGGCAGAGCTGGAGAAGAAACTAAGAACTCTGGAAGTTTCTGGCTTGTGGAGTCTTCCAGGGGGCAAGGACACCATACTGCTCAATGATCAGACTCTCCCCACCATACAGAGGTCAAAGTCCCCACTGTTGAAGTTTGTGGAACAGTCCACCGACAACAAGGAGAGTGCCAGAGATGCTGTTGAGGATGACGATTGCCAAACAAAGGCTTGGAGATGA
Peptide sequence:
MTIAKQRLGDEEIGMRHFAAHEREDLVEQLERAKEQIESLEHDLQASADELQDVKEERASYQDKVDRLNQELNHILGGHENRIIDVDALCMENRYLQERLKQLHEEVSLLKSNIAKYKNALERRKNSKSQGKSSSSALTGVLSAKQVQDLLSEDHGCSLPATPQSIADLKSLATALLETIHEKNMVIQHQRQTNRILGNRVAELEKKLRTLEVSGLWSLPGGKDTILLNDQTLPTIQRSKSPLLKFVEQSTDNKESARDAVEDDDCQTKAWR
IRESfinder result
IRESfinder score
0.395334846
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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