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mmu_ciPygo2_379
Basic information of circular RNA
PanCircBase ID:
mmu_ciPygo2_379
mm39_Chr. Position ID:
chr3|89338036|89338415|+
Gene name:
Pygo2
Transcript:
ENSMUST00000060061.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
379
Exon/intron sizes in nt:
379
Flanking exon/introns:
chr3:89338036-89338433
Splice length:
379
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGAGCGCAGAGAAGGGCAGGGGCTGTTGAGGCCCGGGACCCTGGAACCTCGGATGGAACGGTTGGGGGATGGGGGAGGTTGCCTAGGAGCCTGGAGGTAGCCTCAGGTGAGAAGGGTCAGTGGTTGGAGACAGGTGTCACAGAACACTTCAGGTTTTGGATGACACTGAATTGAGACAAACCTGGTAGTTTCAAGAGATTGGGTTATCTTTGATTTGCAGGAAGACGTAGCTGAGAGTATAGTCATACTAGCCATTTTTCATATCTCACCCCTGTTTCTTAAATAAGTAAGCAAGTGTACGTGGAAGTTAGAGTCTGGAGAGTGGCTGGGAGGAAAGAGACTTGTAGAAACCTCGGGAAAACTTGCCTCCGTCTGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTCTGGAGAGTGGCTGG
60.61
CATCCCCCAACCGTTCCATC
60.75
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCTGGGAGGAAAGAGAC
60.04
CAGGCTCCTAGGCAACCTC
59.48
151
PCR template sequence:
TCTTAAATAAGTAAGCAAGTGTACGTGGAAGTTAGAGTCTGGAGAGTGGCTGGGAGGAAAGAGACTTGTAGAAACCTCGGGAAAACTTGCCTCCGTCTGCGTGAGAGCGCAGAGAAGGGCAGGGGCTGTTGAGGCCCGGGACCCTGGAACCTCGGATGGAACGGTTGGGGGATGGGGGAGGTTGCCTAGGAGCCTGGAGG
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-484(1)
siRNAs for circular RNA silencing
Junction sequence
TGCCTCCGTCTGCGTGAGAGCGCAGA
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
0.591729448
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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