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mmu_circFcho2_295
Basic information of circular RNA
PanCircBase ID:
mmu_circFcho2_295
mm39_Chr. Position ID:
chr13|98925870|98926381|-
Gene name:
Fcho2
Transcript:
ENSMUST00000099277.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,369
Genomic length:
511
Exon/intron sizes in nt:
1,53,142
Flanking exon/introns:
chr13:98921388-98925870|chr13:98926381-98932800
Splice length:
295
Other database IDs:
CIRCpedia: MMU_CIRCpedia_35885, circAtlas: mmu-Fcho2_0018
Human Ortholog IDs:
Mature spliced Sequence:
AACATTTGCACCAATGTGGGATGTATTCAAAACATCTACAGAGAAATTAGCAAATTGTCATTTGGATCTTGTTAGAAAATTACAGGAATTAATAAAGGAAGTTCAGAAGTATGGAGAGGAGCAAGTCAAGTCTCATAAGAAGACTAAAGAAGAAGTCGCAGGGACTCTGGAAGCAGTCCAAGCCATTCAGAATATAACTCAGGCACTCCAGAAGTCGAAGGAAAATTACACTGCCAAATGTGTAGAACAGGAACGTCTGAAAAAGGAAGGAGCTACACAAAGAGAAATAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGGCACTCCAGAAGTCG
60.11
ATGACAATTTGCTAATTTCTCTGT
55.34
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGGCACTCCAGAAGTCG
60.11
TGCTAATTTCTCTGTAGATGTTTTGA
57.15
150
PCR template sequence:
AACTCAGGCACTCCAGAAGTCGAAGGAAAATTACACTGCCAAATGTGTAGAACAGGAACGTCTGAAAAAGGAAGGAGCTACACAAAGAGAAATAGAAAAGAACATTTGCACCAATGTGGGATGTATTCAAAACATCTACAGAGAAATTAGCAAATTGTCATTTGGATCTTGTTAGAAAATTACAGGAATTAATAAAGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAATAGAAAAGAACATTTGCACCA
siRNA sets
AATGTTCTTTTCTATTTCT, AAATGTTCTTTTCTATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFCHO2_295_ORF_1
0.8225
0.005518685
0.244425478
357
ORF sequence:
ATGTGGGATGTATTCAAAACATCTACAGAGAAATTAGCAAATTGTCATTTGGATCTTGTTAGAAAATTACAGGAATTAATAAAGGAAGTTCAGAAGTATGGAGAGGAGCAAGTCAAGTCTCATAAGAAGACTAAAGAAGAAGTCGCAGGGACTCTGGAAGCAGTCCAAGCCATTCAGAATATAACTCAGGCACTCCAGAAGTCGAAGGAAAATTACACTGCCAAATGTGTAGAACAGGAACGTCTGAAAAAGGAAGGAGCTACACAAAGAGAAATAGAAAAGAACATTTGCACCAATGTGGGATGTATTCAAAACATCTACAGAGAAATTAGCAAATTGTCATTTGGATCTTGTTAG
Peptide sequence:
MWDVFKTSTEKLANCHLDLVRKLQELIKEVQKYGEEQVKSHKKTKEEVAGTLEAVQAIQNITQALQKSKENYTAKCVEQERLKKEGATQREIEKNICTNVGCIQNIYREISKLSFGSC
IRESfinder result
IRESfinder score
0.536323425
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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