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mmu_ciGm20460_527
Basic information of circular RNA
PanCircBase ID:
mmu_ciGm20460_527
mm39_Chr. Position ID:
chr17|34844905|34845432|-
Gene name:
Gm20460
Transcript:
ENSMUST00000168709.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
527
Exon/intron sizes in nt:
527
Flanking exon/introns:
chr17:34844905-34845432
Splice length:
527
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCAACGCACACTCTTAACTCCCAACCCCCGTCTGAGCTTGACCCTTATCTAAGGCCTACTTTCTGGCGTTTGTGTCCTGAGTGGGAGGGAGGGTTCCTTCTGTGCTCATTGGCCATGGTTCTTAGATTTAAGGAATTACAGAGCAGCTAAAAGCATTTCAGTTGGTCAGAGGCCTAAACTCGCACCATGGCTCCATCATGTGACCTGTGACCCGTGCTGGAATGGAGTGTATCGGAGGCCTGGGATTCTGAGAGACAGGAAGTAAGGATCACTCCAGTGGCTATTCTTAAGACCCTTTCGGAGCTGGAGAGATGGCTCAGCGGTTAAGAGCACTCACTGACTGCTCTTCCAGAGGTCCAGAGTTCAATTCCCAGCAACCATGTGGTGGCTCACAACCATCTGTAATGAGATCTGATGCCCTCTTCTGGTGTGTGTGTCTGAAGACAGGGACAGTGCACTCATATACATGAAATAAATCAATCAACCTAAAAGACCATTTCCAACACTGGTGCTCTGCTTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGACAGGGACAGTGCAC
59.89
TCCCACTCAGGACACAAACG
59.89
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGACAGGGACAGTGCAC
59.89
TCAGGACACAAACGCCAGAA
59.82
169
PCR template sequence:
TCTGGTGTGTGTGTCTGAAGACAGGGACAGTGCACTCATATACATGAAATAAATCAATCAACCTAAAAGACCATTTCCAACACTGGTGCTCTGCTTCCAGGTAAGCAACGCACACTCTTAACTCCCAACCCCCGTCTGAGCTTGACCCTTATCTAAGGCCTACTTTCTGGCGTTTGTGTCCTGAGTGGGAGGGAGGGTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-203-3p(1), mmu-miR-339-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTGCTTCCAGGTAAGCAACGCAC
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
0.608195995
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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