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mmu_circCoq8a_469
Basic information of circular RNA
PanCircBase ID:
mmu_circCoq8a_469
mm39_Chr. Position ID:
chr1|180006141|180006849|-
Gene name:
Coq8a
Transcript:
ENSMUST00000170472.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,306
Genomic length:
708
Exon/intron sizes in nt:
67,402
Flanking exon/introns:
chr1:180001890-180006141|chr1:180006849-180009626
Splice length:
469
Other database IDs:
circBase: mmu_circ_0008513, CIRCpedia: MMU_CIRCpedia_12277, circAtlas: mmu-Adck3_0001
CIRCpedia: HSA_CIRCpedia_30341
Human Ortholog IDs:
Mature spliced Sequence:
GGTCAGGATAAGCATGAAGATTCATATGCCACTGAGAACTTTGAAGATCTGGAAGCCGAAGTTCAGTTCTCAACACCACAGGCAGCTGGAACCTCCCTGGACTTCTCTGCGGCCTCTTCCCTGGACCAGTCACTGTCTCCATCCCACAGTCAGGGACCGGCCCCTGCCTATGCTTCCAGTGGGCCTTTCAGGGAAGCTGGGCTCCCTGGACAGGCCACCTCTCCTATGGGCAGAGTCAATGGAAGGCTCTTTGTAGATCACAGAGACTTGTTCTTGGCCAACGGCATCCAGCGAAGATCCTTCCACCAGGACCAGTCCTCCGTGGGAGGCCTCACGGCTGAAGACATTGAAAAGGCCCGGCAGGCCAAGGCTCGCCCTGAGAGCAAGCCACACAAGCAGATGCTCAGTGAGCGGGCTCGGGAGCGGAAGGTGCCAGTTACCCGGATTGGGCGGTTGGCCAACTTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCCACACAAGCAGATGC
60.39
TGCCTGTGGTGTTGAGAACT
59.45
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAGCCACACAAGCAGATG
60.39
TGCCTGTGGTGTTGAGAACT
59.45
171
PCR template sequence:
GCTCGCCCTGAGAGCAAGCCACACAAGCAGATGCTCAGTGAGCGGGCTCGGGAGCGGAAGGTGCCAGTTACCCGGATTGGGCGGTTGGCCAACTTTGGAGGGTCAGGATAAGCATGAAGATTCATATGCCACTGAGAACTTTGAAGATCTGGAAGCCGAAGTTCAGTTCTCAACACCACAGGCAGCTGGAACCTCCCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-146a-5p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-146b-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCAACTTTGGAGGGTCAGGATAAGC
siRNA sets
TTATCCTGACCCTCCAAAG, TATCCTGACCCTCCAAAGT, ATCCTGACCCTCCAAAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOQ8A_469_ORF_1
0.9672
0.365770289
0.467354256
255
ORF sequence:
ATGGGCAGAGTCAATGGAAGGCTCTTTGTAGATCACAGAGACTTGTTCTTGGCCAACGGCATCCAGCGAAGATCCTTCCACCAGGACCAGTCCTCCGTGGGAGGCCTCACGGCTGAAGACATTGAAAAGGCCCGGCAGGCCAAGGCTCGCCCTGAGAGCAAGCCACACAAGCAGATGCTCAGTGAGCGGGCTCGGGAGCGGAAGGTGCCAGTTACCCGGATTGGGCGGTTGGCCAACTTTGGAGGGTCAGGATAA
Peptide sequence:
MGRVNGRLFVDHRDLFLANGIQRRSFHQDQSSVGGLTAEDIEKARQAKARPESKPHKQMLSERARERKVPVTRIGRLANFGGSG
IRESfinder result
IRESfinder score
0.442337958
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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