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mmu_ciMbnl1_467
Basic information of circular RNA
PanCircBase ID:
mmu_ciMbnl1_467
mm39_Chr. Position ID:
chr3|60528879|60529346|+
Gene name:
Mbnl1
Transcript:
ENSMUST00000192807.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
467
Exon/intron sizes in nt:
467
Flanking exon/introns:
chr3:60528879-60529566
Splice length:
467
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGCCAGCTTTGTTTCTTGATTATCTTAAACCTATGGTGCAGCTCACAGCCCCTCAAAATCCACTGCTAAGTTTAACTTTTATCTATTGGGCAAGTCCATTTCCCTTTTACTAACACTTGTCAATTAAATGCTATTTTCTATTTAATTGACATGGTCCCACATAAATGTTTTCTTTCCACACAAGTCTCCTTTACTCACTATTAGTGGATTTTGATTGGACTTTGAGTTCTGGTATATAAAAACAAGTCTATCTCGTAAAAGTAATGATTGTATATTTTCATAATAGTGAATAATAAAAAAAGAACTTTTATTCAAATGGCTAACTGTACAAAGTAAATACCTATATTTTATTTATATTTTAATGTCTATAAACACTATATAAAATTCTTGTTTTTTTAACGTAGCAAATTAAGCCTGTTTGTGTCAATTTTCTTGATTTAATGGTAACAAGCTTTTTTTCCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTAACGTAGCAAATTAAGCCTGT
57.44
AGCAGTGGATTTTGAGGGGC
60.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAACGTAGCAAATTAAGCCTGT
56.8
TAGCAGTGGATTTTGAGGGGC
60.34
140
PCR template sequence:
TGTCTATAAACACTATATAAAATTCTTGTTTTTTTAACGTAGCAAATTAAGCCTGTTTGTGTCAATTTTCTTGATTTAATGGTAACAAGCTTTTTTTCCCGTAGGTGCCAGCTTTGTTTCTTGATTATCTTAAACCTATGGTGCAGCTCACAGCCCCTCAAAATCCACTGCTAAGTTTAACTTTTATCTATTGGGCAAGT
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-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTTTTTTTCCCGTAGGTGCCAGCT
siRNA sets
ACCTACGGGAAAAAAAGCT, CACCTACGGGAAAAAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMBNL1_467_ORF_1
1.1333
-0.431581868
0.014355643
96
ORF sequence:
ATGGTAACAAGCTTTTTTTCCCGTAGGTGCCAGCTTTGTTTCTTGATTATCTTAAACCTATGGTGCAGCTCACAGCCCCTCAAAATCCACTGCTAA
Peptide sequence:
MVTSFFSRRCQLCFLIILNLWCSSQPLKIHC
IRESfinder result
IRESfinder score
0.965322898
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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