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mmu_ciMysm1_486
Basic information of circular RNA
PanCircBase ID:
mmu_ciMysm1_486
mm39_Chr. Position ID:
chr4|94840613|94841099|-
Gene name:
Mysm1
Transcript:
ENSMUST00000075872.4
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
486
Exon/intron sizes in nt:
486
Flanking exon/introns:
chr4:94840599-94841099
Splice length:
486
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCTTCTTTTAAAACATTTCAGTTACCAGATGCTATACCAAATATTTTATAGAATTTAGAAAATATAATGAAAATATTGATTTATATCTTTATGTGTGAGAGTATGCAAGTATAGAAAGTTATATGTTCAGAAATGACTTAGCATTCCACATATGAGCATCTGTTTTCTATCAGAGGGAAAGGATTCTGCAGCCTTGGCTACACGCTACCTTCACCAGAGAAAAGCTACAACTAAGGGAAGGAATATATGCTAGTCTTATGGGTAAAAACTGATATTCATCATTCTGCTGAAATTATTTTCATATATAATAGGAACTGTTGAAAATGCAACATTTAGGCATTATAGTGCACTCTGGAAAACTAACCGTTATCATACCTTTTAGATTAGAAAGTGCTAGCTAAAGTCCTAGCCTACAGTCACACTTTGGGAATTTAATTTATTTGGCAAGTAATACAATTGGTTTCACTATAATCCTTCAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAGTGCTAGCTAAAGTCCT
56.83
TTGGTATAGCATCTGGTAACTG
55.34
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAGTGCTAGCTAAAGTCCT
56.83
TTTGGTATAGCATCTGGTAACTG
56.08
142
PCR template sequence:
GATTAGAAAGTGCTAGCTAAAGTCCTAGCCTACAGTCACACTTTGGGAATTTAATTTATTTGGCAAGTAATACAATTGGTTTCACTATAATCCTTCAAGAGTAAGTCTTCTTTTAAAACATTTCAGTTACCAGATGCTATACCAAATATTTTATAGAATTTAGAAAATATAATGAAAATATTGATTTATATCTTTATGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-203-3p(1), mmu-miR-499-5p(1), mmu-miR-342-3p(1), mmu-miR-335-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAATCCTTCAAGAGTAAGTCTTCTTT
siRNA sets
AAGAAGACTTACTCTTGAA, GAAGACTTACTCTTGAAGG
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
0.869612083
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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