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mmu_ciTkfc_539
Basic information of circular RNA
PanCircBase ID:
mmu_ciTkfc_539
mm39_Chr. Position ID:
chr19|10573756|10574295|-
Gene name:
Tkfc
Transcript:
ENSMUST00000237788.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
539
Exon/intron sizes in nt:
539
Flanking exon/introns:
chr19:10573756-10574295
Splice length:
539
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCCTGCGGTCACCATGCCCCTGCCGTGACTGTTTTGCCTGCCTCAGAGGTCTTGCAGTTGTCTAGCTAGTCCTCCCTGCTTATTTAATGCCCCTCAGGTGGTCTCTAGACTCATAGGTGTGCACCTGAGGCATAGCCTAGACTTTATCCTGTCTGACTTTATCTAGTTTGCCATCTGTGCCCAGAGCCATGTGCCTCCTGTCTCACTCTCACCCATATAATTCCCTGTTCTCTTGCTCCAACCCCAATGCACAGGACCCTTTTGGTCCAAAGGACACCTTTTCTGTGACTGACATGTTCCACTTCTTCCCATGTATTTCTAACACAATAGGTATTAGTGTCCTCCAGCTTCTGTGACTTCTCAGCTGGCTCTACTGCCATGCCATCTGCTGCCGTGTTCATTACCCTTTTCTACCCACTGTCCATACCCATTGTGCCTAGTCTAGTGTTGAACACTATGTGCCATTGATAAAAGCATGGAAAGACAATTAGCAGCAGGCTGTGAGCCAGCCAGTAATGACCACATCTCTCCATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGACAATTAGCAGCAGGC
60.16
AGCAGGGAGGACTAGCTAGAC
60.13
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGACAATTAGCAGCAGGC
60.16
AGCAGGGAGGACTAGCTAGA
58.77
142
PCR template sequence:
CCTAGTCTAGTGTTGAACACTATGTGCCATTGATAAAAGCATGGAAAGACAATTAGCAGCAGGCTGTGAGCCAGCCAGTAATGACCACATCTCTCCATAGGTAAGCCTGCGGTCACCATGCCCCTGCCGTGACTGTTTTGCCTGCCTCAGAGGTCTTGCAGTTGTCTAGCTAGTCCTCCCTGCTTATTTAATGCCCCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-33-5p(1), mmu-miR-132-3p(1), mmu-miR-183-5p(1), mmu-miR-34b-5p(1), mmu-miR-224-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTCTCCATAGGTAAGCCTGCGGT
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
0.787895065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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