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mmu_ciCalcoco1_355
Basic information of circular RNA
PanCircBase ID:
mmu_ciCalcoco1_355
mm39_Chr. Position ID:
chr15|102618993|102619348|-
Gene name:
Calcoco1
Transcript:
ENSMUST00000023818.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
355
Exon/intron sizes in nt:
355
Flanking exon/introns:
chr15:102618965-102619348
Splice length:
355
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGGGTGACCCCCCCCTACGTCTGGGACTCCAACTGTAAGTTGGGTGTTCGGGAGGAGAGAAGAGTGGGTGAGATCCTGGGAGGTTGAGGAGAGATGCCCACTGTGCTTTCCAGACATGAACCAACCCAACAAGGAATTCCAGTCCTGATCACCAAAATCCCTAGTTTACCATCCTTGGTGTAGAAACATTTGCTGTCATGGGCACCAGGCCCTGCCATAGTACCAGTTCCCGCTTTCAGGTGACTCAGAAGTGAGGAAATTGGTCAGAAACAATTTGGTCCCCCAGACATAAAAGAAAGACCCAGAGAGGGCAATGCTATTTTCCTGTCATCCTTTGCCACTTCTCCTCCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACAATTTGGTCCCCCAGAC
57.99
CCACTCTTCTCTCCTCCCGA
60.03
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAATTTGGTCCCCCAGAC
57.99
CTCTCCTCAACCTCCCAGGA
59.96
180
PCR template sequence:
GAGGAAATTGGTCAGAAACAATTTGGTCCCCCAGACATAAAAGAAAGACCCAGAGAGGGCAATGCTATTTTCCTGTCATCCTTTGCCACTTCTCCTCCTCGTAGGGGTGACCCCCCCCTACGTCTGGGACTCCAACTGTAAGTTGGGTGTTCGGGAGGAGAGAAGAGTGGGTGAGATCCTGGGAGGTTGAGGAGAGATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-128-3p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCTCCTCCTCGTAGGGGTGACCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICALCOCO1_355_ORF_1
0.6418
-0.051427711
0.034040371
129
ORF sequence:
ATGCTATTTTCCTGTCATCCTTTGCCACTTCTCCTCCTCGTAGGGGTGACCCCCCCCTACGTCTGGGACTCCAACTGTAAGTTGGGTGTTCGGGAGGAGAGAAGAGTGGGTGAGATCCTGGGAGGTTGA
Peptide sequence:
MLFSCHPLPLLLLVGVTPPYVWDSNCKLGVREERRVGEILGG
IRESfinder result
IRESfinder score
0.637314523
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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