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mmu_ciMfsd14a_780
Basic information of circular RNA
PanCircBase ID:
mmu_ciMfsd14a_780
mm39_Chr. Position ID:
chr3|116434115|116434895|-
Gene name:
Mfsd14a
Transcript:
ENSMUST00000029570.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
780
Exon/intron sizes in nt:
780
Flanking exon/introns:
chr3:116434107-116434895
Splice length:
780
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGCCGTCCTACCAAAGCAAGCTTGTCATGTTGAGCGCTGTAAAAACAGGAGCTGTGGTCATCTTTAAAATGAATACTTGTCCTAGTTTGCCTTCTATTGCTGTGATAAAACACTCACCACAAGCAACTCAGGCAAGAAAGGATTATTTAGCTTATATTCCATGTACAGTCCCATCTTTGGAGGGAATCAGGGCAGAAACCTGGAAGCAGGAAGTGAAGCAGACACTATGGAGGAATGCTGCTTTCTGCTTGCTCCTTCCAGGACCGCGTGCTCCAGAGTGGTACCATCTATGGTGTGCAGGGCCCTCCTCCATCAGTCAAGAGTCAAGGAAATGTCCCCACACACTCGCCTAGAGGCCAGGCTGATGAAAGCTTTAAGTAGAGGTTCTCTCTTCCCAGGTGACTGTAGAACTGCCCCACAACACGTTTATAAACGAATGGCCAACAAGAGCTTAACCTCCGCCACACGGCCGCCTTATGCTCCCCATCCTTGGTACTGGAGGTGAAACCAGGACCTCATGTTGTACTTATTTTTAAAATGGTTTTGGGTGCTTGATAGCTTAGTTATGGCCAAATAAAAGAGGTCTATTATATATAAGAAGGTATTTTAAATATGATAAGCCATTTTTTTCCTGAAGGAAAAATGTGTATGATTAAAATTAGAATGAAAAGTTGTCAATAGTCATTTTTCTAGCCATTTAATCGTACATGTACTAGTGTTACATGAGTATATATGTGCTGTGCTTCCTTTTTCATTAATTTTACTTGTTTTGGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTGTGCTTCCTTTTTCA
58.9
AGAAGGCAAACTAGGACAAGT
56.85
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTGTGCTTCCTTTTTCA
58.9
GAAGGCAAACTAGGACAAGT
55.28
141
PCR template sequence:
AATAGTCATTTTTCTAGCCATTTAATCGTACATGTACTAGTGTTACATGAGTATATATGTGCTGTGCTTCCTTTTTCATTAATTTTACTTGTTTTGGAAAGTAAGGCCGTCCTACCAAAGCAAGCTTGTCATGTTGAGCGCTGTAAAAACAGGAGCTGTGGTCATCTTTAAAATGAATACTTGTCCTAGTTTGCCTTCTA
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-miR-16-5p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-411-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGTTTTGGAAAGTAAGGCCGTCCT
siRNA sets
NA
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
0.724885792
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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