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mmu_ciFrk_880
Basic information of circular RNA
PanCircBase ID:
mmu_ciFrk_880
mm39_Chr. Position ID:
chr10|34423410|34424290|+
Gene name:
Frk
Transcript:
ENSMUST00000019913.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
880
Exon/intron sizes in nt:
880
Flanking exon/introns:
chr10:34423410-34459893
Splice length:
880
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGGCATTGTCCTGTGTGATTGGCATATGAATTTGAGAGCTTGCAGTCAAGCACTTGCTATGTATACCTGAGTATGTTATTGTCAAATTTTCCTGTTTTCTTTTAGTCACAATTTCACCAAAATTAAAACATACTGAACTACTCAGGAATAACATCAATATTAGACAATCTCTCCCACCCTCATGGTGAGATGCTTCTAGAAACAGTTCTCAATATATGAACTATAGATATGAAATGACAAGCCCAGGGATCATGGGATTTGGCTTCACATTAATTAAGTATCCTTTTGGAGAAATGATTACAAAGAAGTAAAATCTATTCTATTATAAAAACTGATTTGCAAAAATGCTATGCTCTTTTTCATTCCTCTTTCCCCTCTTTCTCCTTCTGTGTCTTCACTTGTCTATCTTATAACTAAAAAAAATAGAAATGTTGAGAAAAAATATATTTATTTAACCTACTGGATGCATTATGCTGTTGAATACTGTTTAAGATAAAATGTGTAACTGTACTGCCCTAAGAAAACAGTGTAGGGGCTTGAGAAACACCTTCAGAGCTTTAGACATTGTGCCTGCTTTCACAAATCTGCATTCCAATTCAGTTGCAACAAGGCAGAATATCCTTGTTTAGAGTTGCCACACCAACCTACCTCTAAGTGGGACTTTCTTGCTCTTTCCTAGTTTAGATCTCTATACATCTAGTACATGTTCTTTTTCCCCATTATCATCCTTTAAAGCATGTATTATATTTTTTTTTTCTGAGTAGATTAAACTTTTTTGGAGTGGGAAGCAAATTCCATCATTTCTGTTTGCCTATTTTTATGTTAGTCATGATCTTGTGTAACTCATGATGTCCCATTGGCTCACTAGAAGTTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAATTCCATCATTTCTGTTTGCC
60.39
TGACTGCAAGCTCTCAAATTCA
58.52
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAAATTCCATCATTTCTGTTTGC
59.59
TGACTGCAAGCTCTCAAATTCA
58.52
142
PCR template sequence:
TGGAGTGGGAAGCAAATTCCATCATTTCTGTTTGCCTATTTTTATGTTAGTCATGATCTTGTGTAACTCATGATGTCCCATTGGCTCACTAGAAGTTGTGGTGTGGGCATTGTCCTGTGTGATTGGCATATGAATTTGAGAGCTTGCAGTCAAGCACTTGCTATGTATACCTGAGTATGTTATTGTCAAATTTTCCTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-miR-185-5p(1), mmu-let-7d-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-369-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTAGAAGTTGTGGTGTGGGCATTGT
siRNA sets
AATGCCCACACCACAACTT, CAATGCCCACACCACAACT, ATGCCCACACCACAACTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIFRK_880_ORF_5
0.8589
-0.321253041
0.014164718
105
ORF sequence:
ATGATGTCCCATTGGCTCACTAGAAGTTGTGGTGTGGGCATTGTCCTGTGTGATTGGCATATGAATTTGAGAGCTTGCAGTCAAGCACTTGCTATGTATACCTGA
Peptide sequence:
MMSHWLTRSCGVGIVLCDWHMNLRACSQALAMYT
IRESfinder result
IRESfinder score
0.936799279
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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