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mmu_ciPrkar1a_151
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrkar1a_151
mm39_Chr. Position ID:
chr11|109544787|109544938|+
Gene name:
Prkar1a
Transcript:
ENSMUST00000106677.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
151
Exon/intron sizes in nt:
151
Flanking exon/introns:
chr11:109544787-109550824
Splice length:
151
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAATTCATGAGGGAGCGATTTGATGACCATGACAGTTGCTGTGCTTAGAGCTTCTGAATGTCAACTGATGTGTGACTTCGGGCAAGAGGGGTTCTGGCCAAGTAAGTCAAGCAGAAATTCAGATTATCATGCAGTGAAGGATTTTTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCGGGCAAGAGGGGTTC
60.38
AGCACAGCAACTGTCATGGT
60.18
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCGGGCAAGAGGGGTTC
60.38
GCACAGCAACTGTCATGGTC
59.76
120
PCR template sequence:
GACTTCGGGCAAGAGGGGTTCTGGCCAAGTAAGTCAAGCAGAAATTCAGATTATCATGCAGTGAAGGATTTTTTAGTAAAATTCATGAGGGAGCGATTTGATGACCATGACAGTTGCTGTGCTTAGAGCTTCTGAATGTCAACTGATGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-217-5p(1), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGGATTTTTTAGTAAAATTCATGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPRKAR1A_151_ORF_1
0.4796
-0.048472314
0.036290856
177
ORF sequence:
ATGACCATGACAGTTGCTGTGCTTAGAGCTTCTGAATGTCAACTGATGTGTGACTTCGGGCAAGAGGGGTTCTGGCCAAGTAAGTCAAGCAGAAATTCAGATTATCATGCAGTGAAGGATTTTTTAGTAAAATTCATGAGGGAGCGATTTGATGACCATGACAGTTGCTGTGCTTAG
Peptide sequence:
MTMTVAVLRASECQLMCDFGQEGFWPSKSSRNSDYHAVKDFLVKFMRERFDDHDSCCA
IRESfinder result
IRESfinder score
0.245762396
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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