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mmu_ciPrkcb_138
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrkcb_138
mm39_Chr. Position ID:
chr7|122227094|122227232|+
Gene name:
Prkcb
Transcript:
ENSMUST00000143692.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
138
Exon/intron sizes in nt:
138
Flanking exon/introns:
chr7:122227094-122232967
Splice length:
138
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACATTTTTTCTTTTTCATTGCCGAGTTACATCCGTGTTTTCTTTTCTGATGAGGCTAGAGTGGCCATGTTTCAGAACCCAAATGTCTTCAAGTAGTTTGGAGCATCTCAAGGAGATGGAATTATGCAGGTGGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTTCAAGTAGTTTGGAGCA
57.58
GCCACTCTAGCCTCATCAGA
58.59
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTTCAAGTAGTTTGGAGCA
57.58
GCCACTCTAGCCTCATCAGAA
59.24
120
PCR template sequence:
TGTTTCAGAACCCAAATGTCTTCAAGTAGTTTGGAGCATCTCAAGGAGATGGAATTATGCAGGTGGCATGTGACATTTTTTCTTTTTCATTGCCGAGTTACATCCGTGTTTTCTTTTCTGATGAGGCTAGAGTGGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-411-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCAGGTGGCATGTGACATTTTTTC
siRNA sets
AAAAATGTCACATGCCACC,AAAATGTCACATGCCACCT,AAAAAATGTCACATGCCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPRKCB_138_ORF_1
0.7138
-0.26751651
0.032538641
225
ORF sequence:
ATGAGGCTAGAGTGGCCATGTTTCAGAACCCAAATGTCTTCAAGTAGTTTGGAGCATCTCAAGGAGATGGAATTATGCAGGTGGCATGTGACATTTTTTCTTTTTCATTGCCGAGTTACATCCGTGTTTTCTTTTCTGATGAGGCTAGAGTGGCCATGTTTCAGAACCCAAATGTCTTCAAGTAGTTTGGAGCATCTCAAGGAGATGGAATTATGCAGGTGGCAT
Peptide sequence:
MRLEWPCFRTQMSSSSLEHLKEMELCRWHVTFFLFHCRVTSVFSFLMRLEWPCFRTQMSSSSLEHLKEMELCRWH
IRESfinder result
IRESfinder score
0.886319834
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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