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mmu_ciEpb41_108
Basic information of circular RNA
PanCircBase ID:
mmu_ciEpb41_108
mm39_Chr. Position ID:
chr4|131730787|131730895|-
Gene name:
Epb41
Transcript:
ENSMUST00000137846.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
108
Exon/intron sizes in nt:
108
Flanking exon/introns:
chr4:131727615-131730895
Splice length:
108
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTCGTTTTAATCCCCGAGGGCAGAGCACTCACAGGCCTTCTGTGCTACAGACAAGGCCCACCCTGAGGACATCCTGCGGGTGGAAATGAAGGGACAGGAAAATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGTGGAAATGAAGGGACA
59.96
GAAGGCCTGTGAGTGCTCTG
60.67
72
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGTGGAAATGAAGGGACA
59.96
CAGAAGGCCTGTGAGTGCTC
60.67
74
PCR template sequence:
ACAAGGCCCACCCTGAGGACATCCTGCGGGTGGAAATGAAGGGACAGGAAAATTGTGAGTCGTTTTAATCCCCGAGGGCAGAGCACTCACAGGCCTTCTGTGCTACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACAGGAAAATTGTGAGTCGTTTTA
siRNA sets
AACGACTCACAATTTTCCT, AAACGACTCACAATTTTCC, GACTCACAATTTTCCTGTC
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
0.567483245
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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