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mmu_circPsmd1_87
Basic information of circular RNA
PanCircBase ID:
mmu_circPsmd1_87
mm39_Chr. Position ID:
chr1|86060435|86060522|+
Gene name:
Psmd1
Transcript:
ENSMUST00000027432.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
22
Exon/intron offsets:
0
Genomic length:
87
Exon/intron sizes in nt:
87
Flanking exon/introns:
chr1:86058451-86060435|chr1:86060522-86061359
Splice length:
87
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCCACCGCTGTGTTGTCTATTACTGCCAAAGCTAAAAAAAAAGAAAAAGAAAAAGAAAAAAAGGAGGAGGAGAAGATGGAAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGGAGGAGAAGATGGAAGT
60.25
AGCTTTGGCAGTAATAGACAACAC
59.54
60
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGGAGGAGGAGAAGATGGA
57.5
GCTTTGGCAGTAATAGACAACACA
59.78
60
PCR template sequence:
AGAAAAAGAAAAAGAAAAAAAGGAGGAGGAGAAGATGGAAGTGGTTTCCACCGCTGTGTTGTCTATTACTGCCAAAGCTAAAAAAA
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-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGATGGAAGTGGTTTCCACCGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSMD1_87_ORF_1
1.1303
0.305628398
0.230962716
96
ORF sequence:
ATGGAAGTGGTTTCCACCGCTGTGTTGTCTATTACTGCCAAAGCTAAAAAAAAAGAAAAAGAAAAAGAAAAAAAGGAGGAGGAGAAGATGGAAGTG
Peptide sequence:
MEVVSTAVLSITAKAKKKEKEKEKKEEEKMEV
IRESfinder result
IRESfinder score
0.219333726
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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