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mmu_circFkbp3_350
Basic information of circular RNA
PanCircBase ID:
mmu_circFkbp3_350
mm39_Chr. Position ID:
chr12|65113415|65116826|-
Gene name:
Fkbp3
Transcript:
ENSMUST00000221166.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,2360,3305
Genomic length:
3411
Exon/intron sizes in nt:
13,61,08,106
Flanking exon/introns:
chr12:65112578-65113415|chr12:65116826-65120588
Splice length:
350
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26043, circAtlas: mmu-Fkbp3_0004
Human Ortholog IDs:
Mature spliced Sequence:
TTTCTTGCAGAGCATAAATTACTGGGAAACATCAAAAATGTTGCCAAGACTGCTAATAAGGACCATTTGGTTAATGCCTATAACCATCTTTTTGAAAGTAAGGTAACGTTTCAAGGGTACTGAAACTATAAGTAAAGTGTCTGAACAGGTGAAAAATGTGAAGCTTAGTGACGACAAACCCAAAGACTCCAAGTCTGAAGAGACTCTTGATGAGGGTCCACCAAAATACACAAAATCTATTCTAAAAAAGGGAGATAAAACCAACTTTCCTAAAAAGGGGGATGTTGTTCACTGCTGGTATACAGGGACACTCCCAGATGGGACTGTTTTTGATACTAATATTCAAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGGATGTTGTTCACTGC
60.25
TGGTCCTTATTAGCAGTCTTGGC
60.37
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGGATGTTGTTCACTGC
60.25
TGGTCCTTATTAGCAGTCTTGG
57.51
140
PCR template sequence:
GGAGATAAAACCAACTTTCCTAAAAAGGGGGATGTTGTTCACTGCTGGTATACAGGGACACTCCCAGATGGGACTGTTTTTGATACTAATATTCAAACAATTTCTTGCAGAGCATAAATTACTGGGAAACATCAAAAATGTTGCCAAGACTGCTAATAAGGACCATTTGGTTAATGCCTATAACCATCTTTTTGAAAGTA
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-212-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATATTCAAACAATTTCTTGCAGAGC
siRNA sets
TCTGCAAGAAATTGTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFKBP3_350_ORF_1
0.935
-0.159126776
0.058098153
192
ORF sequence:
ATGTTGTTCACTGCTGGTATACAGGGACACTCCCAGATGGGACTGTTTTTGATACTAATATTCAAACAATTTCTTGCAGAGCATAAATTACTGGGAAACATCAAAAATGTTGCCAAGACTGCTAATAAGGACCATTTGGTTAATGCCTATAACCATCTTTTTGAAAGTAAGGTAACGTTTCAAGGGTACTGA
Peptide sequence:
MLFTAGIQGHSQMGLFLILIFKQFLAEHKLLGNIKNVAKTANKDHLVNAYNHLFESKVTFQGY
IRESfinder result
IRESfinder score
0.686317838
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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