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mmu_ciMacf1_352
Basic information of circular RNA
PanCircBase ID:
mmu_ciMacf1_352
mm39_Chr. Position ID:
chr4|123359299|123359651|-
Gene name:
Macf1
Transcript:
ENSMUST00000097897.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
38
Exon/intron offsets:
0
Genomic length:
352
Exon/intron sizes in nt:
352
Flanking exon/introns:
chr4:123359298-123359651
Splice length:
352
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGTGTCTTGGTTTGGTGGTGTTGGTTTTTTTTGTGAGTTTTTTTTTTTAAAGGGTTATTTTTAATTATGTATATGTATATTGAGGGCTATGTGTATGTGAGTGTGGGTGCCAGCAAGAAAGGAAGGGACCCCTGCCCCTGGTACTTGAGTTACATACAGTATGTTTGTGAACTGCTTGGTGTGGGTGCTAGGAACCAAATTCAGGTACTTTGTAAGAGCAGCAAATGCTCTTAATCACCCAGGCATCTTTCCAGCCCTAGTGCCTTGCTTGTTCTTATTCCTAAGGGAGGGCCCACACAAAGCCTGGGTAGATCTGGAGAGGGATGGTCTGACTTGCTGTTTATTTCCTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACAAAGCCTGGGTAGA
59.6
ACATACACATAGCCCTCAATATACA
57.45
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACACAAAGCCTGGGTAG
60.61
ACATACACATAGCCCTCAATATACA
57.45
159
PCR template sequence:
CCAGCCCTAGTGCCTTGCTTGTTCTTATTCCTAAGGGAGGGCCCACACAAAGCCTGGGTAGATCTGGAGAGGGATGGTCTGACTTGCTGTTTATTTCCTAGTAGTGTCTTGGTTTGGTGGTGTTGGTTTTTTTTGTGAGTTTTTTTTTTTAAAGGGTTATTTTTAATTATGTATATGTATATTGAGGGCTATGTGTATGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-411-3p(1), mmu-miR-297a-5p(1), mmu-miR-466d-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTTATTTCCTAGTAGTGTCTTGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMACF1_352_ORF_1
0.6383
-0.305475439
0.024693697
228
ORF sequence:
ATGTTTGTGAACTGCTTGGTGTGGGTGCTAGGAACCAAATTCAGGTACTTTGTAAGAGCAGCAAATGCTCTTAATCACCCAGGCATCTTTCCAGCCCTAGTGCCTTGCTTGTTCTTATTCCTAAGGGAGGGCCCACACAAAGCCTGGGTAGATCTGGAGAGGGATGGTCTGACTTGCTGTTTATTTCCTAGTAGTGTCTTGGTTTGGTGGTGTTGGTTTTTTTTGTGA
Peptide sequence:
MFVNCLVWVLGTKFRYFVRAANALNHPGIFPALVPCLFLFLREGPHKAWVDLERDGLTCCLFPSSVLVWWCWFFL
IRESfinder result
IRESfinder score
0.880190515
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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