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mmu_circFubp1_708
Basic information of circular RNA
PanCircBase ID:
mmu_circFubp1_708
mm39_Chr. Position ID:
chr3|151925569|151927881|+
Gene name:
Fubp1
Transcript:
ENSMUST00000166984.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,10,11,12,13,14
Exon/intron offsets:
0,203,532,753,1334,2151
Genomic length:
2312
Exon/intron sizes in nt:
99,10,21,03,10,11,42,100
Flanking exon/introns:
chr3:151925483-151925569|chr3:151927881-151928465
Splice length:
708
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACGGGCTGGTGTTAAAATGGTAATGATTCAAGATGGGCCTCAAAACACTGGTGCTGATAAACCTCTTAGGATTACGGGTGACCCATACAAAGTTCAGCAAGCCAAGGAAATGGTATTAGAGTTAATTCGTGATCAAGGTGGTTTCAGAGAAGTGCGGAATGAGTATGGCTCAAGAATAGGAGGCAATGAAGGGATAGATGTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAGATGATGGAACAACACCTGATAGGATAGCACAGATAACAGGACCTCCAGACAGGTGTCAGCACGCTGCAGAAATAATCACAGACCTTCTACGAAGTGTTCAGGCTGGCAATCCTGGTGGACCGGGACCTGGTGGTCGAGGACGAGGTAGAGGTCAAGGAAACTGGAATATGGGGCCCCCGGGTGGACTCCAGGAGTTTAATTTCATTGTGCCAACTGGGAAAACTGGACTGATCATTGGAAAAGGAGGTGAAACCATAAAAAGCATAAGCCAACAGTCTGGTGCAAGAATAGAACTGCAGAGAAGCCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCACCTAATGCAGATCCC
59.93
CAGCACCAGTGTTTTGAGGC
59.97
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTCCACCTAATGCAGATCC
59.93
CAGCACCAGTGTTTTGAGGC
59.97
158
PCR template sequence:
CCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGGGAACGGGCTGGTGTTAAAATGGTAATGATTCAAGATGGGCCTCAAAACACTGGTGCTGATAAACCTCTTAGGATTACGGGTGACCCATACAAAGTTCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-205-5p(1), mmu-miR-204-5p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-99a-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGAAGATTGGGGAACGGGCTGGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFUBP1_708_ORF_1
1.0895
0.089352876
0.999256679
1398
ORF sequence:
ATGGTAATGATTCAAGATGGGCCTCAAAACACTGGTGCTGATAAACCTCTTAGGATTACGGGTGACCCATACAAAGTTCAGCAAGCCAAGGAAATGGTATTAGAGTTAATTCGTGATCAAGGTGGTTTCAGAGAAGTGCGGAATGAGTATGGCTCAAGAATAGGAGGCAATGAAGGGATAGATGTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAGATGATGGAACAACACCTGATAGGATAGCACAGATAACAGGACCTCCAGACAGGTGTCAGCACGCTGCAGAAATAATCACAGACCTTCTACGAAGTGTTCAGGCTGGCAATCCTGGTGGACCGGGACCTGGTGGTCGAGGACGAGGTAGAGGTCAAGGAAACTGGAATATGGGGCCCCCGGGTGGACTCCAGGAGTTTAATTTCATTGTGCCAACTGGGAAAACTGGACTGATCATTGGAAAAGGAGGTGAAACCATAAAAAGCATAAGCCAACAGTCTGGTGCAAGAATAGAACTGCAGAGAAGCCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGGGAACGGGCTGGTGTTAAAATGGTAATGATTCAAGATGGGCCTCAAAACACTGGTGCTGATAAACCTCTTAGGATTACGGGTGACCCATACAAAGTTCAGCAAGCCAAGGAAATGGTATTAGAGTTAATTCGTGATCAAGGTGGTTTCAGAGAAGTGCGGAATGAGTATGGCTCAAGAATAGGAGGCAATGAAGGGATAGATGTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAGATGATGGAACAACACCTGATAGGATAGCACAGATAACAGGACCTCCAGACAGGTGTCAGCACGCTGCAGAAATAATCACAGACCTTCTACGAAGTGTTCAGGCTGGCAATCCTGGTGGACCGGGACCTGGTGGTCGAGGACGAGGTAGAGGTCAAGGAAACTGGAATATGGGGCCCCCGGGTGGACTCCAGGAGTTTAATTTCATTGTGCCAACTGGGAAAACTGGACTGATCATTGGAAAAGGAGGTGAAACCATAAAAAGCATAAGCCAACAGTCTGGTGCAAGAATAGAACTGCAGAGAAGCCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGG
Peptide sequence:
MVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIRDQGGFREVRNEYGSRIGGNEGIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPDRIAQITGPPDRCQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRSPPPNADPNMKLFTIRGTPQQIDYARQLIEEKIGERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIRDQGGFREVRNEYGSRIGGNEGIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPDRIAQITGPPDRCQHAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRSPPPNADPNMKLFTIRGTPQQIDYARQLIEEKIG
IRESfinder result
IRESfinder score
0.442651528
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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