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mmu_ciPsmb6_341
Basic information of circular RNA
PanCircBase ID:
mmu_ciPsmb6_341
mm39_Chr. Position ID:
chr11|70416778|70417119|+
Gene name:
Psmb6
Transcript:
ENSMUST00000018430.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
341
Exon/intron sizes in nt:
341
Flanking exon/introns:
chr11:70416778-70417119
Splice length:
341
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCTCAAAACAGAAAGTCTTCCCGTTTCCCCTACTCCAAACATATACCATTCCTGCCTGTCAGCCCATCCTTACCCTCCTCAGACCACTGTGGCAAGAGAAGTTTCTCCACTACCTGGAGATAATAAGGACTTGTTCCTAATTCTGTGGTTTCCAGGCCCCCTCACCCTTTGGTGAACTACCAGTAAAGGTCTGTTCTCCATTCATCCGGCTTCATTTTCCATGAGGACTAGTAGGTGGTAGCAGTATTTGTATCCCTGGAGCTGCAGGGAGTAGACGGTGATGTGGTGGAGGAGGGAGGCAAGTGGGCTCCTTCTCACTGTTTCCGCCATCCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGGAGTAGACGGTGATG
59.9
GGTAAGGATGGGCTGACAGG
59.82
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGGAGTAGACGGTGATG
59.9
GGGTAAGGATGGGCTGACAG
59.82
153
PCR template sequence:
GTAGCAGTATTTGTATCCCTGGAGCTGCAGGGAGTAGACGGTGATGTGGTGGAGGAGGGAGGCAAGTGGGCTCCTTCTCACTGTTTCCGCCATCCTGCAGGTGAGCTCAAAACAGAAAGTCTTCCCGTTTCCCCTACTCCAAACATATACCATTCCTGCCTGTCAGCCCATCCTTACCCTCCTCAGACCACTGTGGCAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCCATCCTGCAGGTGAGCTCAAAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPSMB6_341_ORF_1
1.0953
-0.069643649
0.113404098
201
ORF sequence:
ATGTGGTGGAGGAGGGAGGCAAGTGGGCTCCTTCTCACTGTTTCCGCCATCCTGCAGGTGAGCTCAAAACAGAAAGTCTTCCCGTTTCCCCTACTCCAAACATATACCATTCCTGCCTGTCAGCCCATCCTTACCCTCCTCAGACCACTGTGGCAAGAGAAGTTTCTCCACTACCTGGAGATAATAAGGACTTGTTCCTAA
Peptide sequence:
MWWRREASGLLLTVSAILQVSSKQKVFPFPLLQTYTIPACQPILTLLRPLWQEKFLHYLEIIRTCS
IRESfinder result
IRESfinder score
0.758716661
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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