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mmu_circCfdp1_326
Basic information of circular RNA
PanCircBase ID:
mmu_circCfdp1_326
mm39_Chr. Position ID:
chr8|112568414|112571843|-
Gene name:
Cfdp1
Transcript:
ENSMUST00000034432.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,3311
Genomic length:
3429
Exon/intron sizes in nt:
2,08,118
Flanking exon/introns:
chr8:112567117-112568414|chr8:112571843-112580775
Splice length:
326
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213596, circAtlas: mmu-Cfdp1_0005
circAtlas: hsa-CFDP1_0003, CIRCpedia: HSA_CIRCpedia_373992
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAGAGTACAGTGAAGATGATGTCAATGAATTAGTAAAGGAAGATGAAGTGGACGGTGAAGAGCAGGCTGAGAAAACCAAAGGGAAAAGAAGGAAGGCTCAGGGCATTCCAGCCAGGAAAAGGAAACAAAGTGGCCTCTTGTTAGAAGAAGAGGAAGATGGCAAGGAAGACTCTGGAGGTAGTAGCAGTGAAGAAGATGAAGAGGAGCAAGAAGGAGGCCTTGGGTCAGAGAATGCAAGGAAGAAGAAGGAAGATGAGTTGTGGGCCAGCTTCCTTAATGATGTAGGACCAAAGTCAAAAGCAGCCCCAGGTTCACAAACTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGATGAGTTGTGGGCCA
59.96
GCTCTTCACCGTCCACTTCA
59.97
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGATGAGTTGTGGGCCA
59.96
TGCTCTTCACCGTCCACTTC
59.97
143
PCR template sequence:
GTCAGAGAATGCAAGGAAGAAGAAGGAAGATGAGTTGTGGGCCAGCTTCCTTAATGATGTAGGACCAAAGTCAAAAGCAGCCCCAGGTTCACAAACTAAGGTGGAGAGTACAGTGAAGATGATGTCAATGAATTAGTAAAGGAAGATGAAGTGGACGGTGAAGAGCAGGCTGAGAAAACCAAAGGGAAAAGAAGGAAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(2), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCACAAACTAAGGTGGAGAGTACAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.149913313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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