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mmu_circPrkar1a_342
Basic information of circular RNA
PanCircBase ID:
mmu_circPrkar1a_342
mm39_Chr. Position ID:
chr11|109553774|109556812|+
Gene name:
Prkar1a
Transcript:
ENSMUST00000106677.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,1810,2916
Genomic length:
3038
Exon/intron sizes in nt:
1,59,61,122
Flanking exon/introns:
chr11:109553148-109553774|chr11:109556812-109557469
Splice length:
342
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219337, circAtlas: mmu-Prkar1a_0006
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTCTATGTCAATAATGAATGGGCAACCAGTGTTGGGGAAGGAGGGAGCTTTGGAGAGCTGGCTTTGATTTATGGAACACCCAGAGCAGCCACTGTCAAAGCAAAGACAAACGTGAAACTGTGGGGCATCGACCGAGACAGCTACCGAAGAATCCTCATGGGAAGCACTCTGCGAAAGAGGAAGATGTATGAAGAATTCCTTAGTAAAGTGTCTATTTTAGAGTCTCTGGACAAGTGGGAGCGTCTCACAGTAGCCGATGCATTGGAGCCTGTCCAGTTTGAAGATGGACAGAAGATCGTGGTGCAAGGAGAGCCGGGGGATGAGTTCTTCATCATTTTAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAGAAGATCGTGGTGCA
60.04
GCTGCTCTGGGTGTTCCATA
59.75
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACAGAAGATCGTGGTGC
60.04
GCTGCTCTGGGTGTTCCATA
59.75
147
PCR template sequence:
TCTCACAGTAGCCGATGCATTGGAGCCTGTCCAGTTTGAAGATGGACAGAAGATCGTGGTGCAAGGAGAGCCGGGGGATGAGTTCTTCATCATTTTAGAGGTCTATGTCAATAATGAATGGGCAACCAGTGTTGGGGAAGGAGGGAGCTTTGGAGAGCTGGCTTTGATTTATGGAACACCCAGAGCAGCCACTGTCAAAG
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-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCATTTTAGAGGTCTATGTCAATA
siRNA sets
TATTGACATAGACCTCTAA, ATTGACATAGACCTCTAAA, ACATAGACCTCTAAAATGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRKAR1A_342_ORF_1
1.0681
0.325384512
0.86619811
528
ORF sequence:
ATGGGAAGCACTCTGCGAAAGAGGAAGATGTATGAAGAATTCCTTAGTAAAGTGTCTATTTTAGAGTCTCTGGACAAGTGGGAGCGTCTCACAGTAGCCGATGCATTGGAGCCTGTCCAGTTTGAAGATGGACAGAAGATCGTGGTGCAAGGAGAGCCGGGGGATGAGTTCTTCATCATTTTAGAGGTCTATGTCAATAATGAATGGGCAACCAGTGTTGGGGAAGGAGGGAGCTTTGGAGAGCTGGCTTTGATTTATGGAACACCCAGAGCAGCCACTGTCAAAGCAAAGACAAACGTGAAACTGTGGGGCATCGACCGAGACAGCTACCGAAGAATCCTCATGGGAAGCACTCTGCGAAAGAGGAAGATGTATGAAGAATTCCTTAGTAAAGTGTCTATTTTAGAGTCTCTGGACAAGTGGGAGCGTCTCACAGTAGCCGATGCATTGGAGCCTGTCCAGTTTGAAGATGGACAGAAGATCGTGGTGCAAGGAGAGCCGGGGGATGAGTTCTTCATCATTTTAGAG
Peptide sequence:
MGSTLRKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGSTLRKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILE
IRESfinder result
IRESfinder score
0.565768983
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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