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mmu_circPrkcsh_159
Basic information of circular RNA
PanCircBase ID:
mmu_circPrkcsh_159
mm39_Chr. Position ID:
chr9|21922733|21922892|+
Gene name:
Prkcsh
Transcript:
ENSMUST00000115331.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
159
Exon/intron sizes in nt:
159
Flanking exon/introns:
chr9:21922549-21922733|chr9:21922892-21922969
Splice length:
159
Other database IDs:
circAtlas: mmu-Prkcsh_0005
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_150289
Human Ortholog IDs:
Mature spliced Sequence:
GTCCCGCCCACTGACATACCTGTTCCGGAGGAGACTGAGCCCAAAGAGGAAAAGCCACCAGTGTTGCCACCCACAGAGGAGGAGGAAGAGGAGGAGGAGGAGCCAGAAGAAGAGGAGGAGGAAGAGGAAGAGGAGGAGGTGCAGGGGGAGCAGCCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGGAGGAGCCAGAAGA
60.03
TGGCTTTTCCTCTTTGGGCT
59.81
126
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGGAGGAGCCAGAAGA
60.03
GCAACACTGGTGGCTTTTCC
60.25
136
PCR template sequence:
GGAGGAAGAGGAGGAGGAGGAGCCAGAAGAAGAGGAGGAGGAAGAGGAAGAGGAGGAGGTGCAGGGGGAGCAGCCCAAGGTCCCGCCCACTGACATACCTGTTCCGGAGGAGACTGAGCCCAAAGAGGAAAAGCCACCAGTGTTGCCACCCACAGAGG
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-207(2), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCAGCCCAAGGTCCCGCCCACTG
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
0.217243773
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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