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mmu_circFoxp1_362
Basic information of circular RNA
PanCircBase ID:
mmu_circFoxp1_362
mm39_Chr. Position ID:
chr6|99052814|99237380|-
Gene name:
Foxp1
Transcript:
ENSMUST00000113326.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,86985,184491
Genomic length:
184566
Exon/intron sizes in nt:
96,191,75
Flanking exon/introns:
chr6:98993626-99052814|chr6:99237380-99243307
Splice length:
362
Other database IDs:
CIRCpedia: MMU_CIRCpedia_36029, circAtlas: mmu-Foxp1_0023
Human Ortholog IDs:
Mature spliced Sequence:
GGTGAGACGTGACCTTTGGAGGTGACTATAACTGAAGATTGAATTACAGAAGCCAAAAAATTAAATAAATAAAAGGTTTTTGAGTCATGATGCAAGAATCTGGGTCTGAGACAAAAAGTAACGGATCAGCCATCCAGAACGGGTCCAGCGGTGGCAACCACTTACTAGAGTGCGGGGCACTTCGTGACACTCGGTCCAACGGAGAGGCACCAGCGGTGGACCTGGGGGCAGCCGACCTTGCCCACGTCCAGCAGCAGCAACAGCAGCAGCAACAACAGCAGCAGCAGCAACAGCAGCAGCAGCAGCAGCAAGTTAGTGGATTAAAGTCTCCCAAGAGGAATGACAAGCAACCAGCTCTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCAGCAGCAAGTTAGTG
60.11
TCTTGCATCATGACTCAAAAACCT
59.17
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCAGCAGCAGCAAGTTAG
59.83
TCTTGCATCATGACTCAAAAACCT
59.17
163
PCR template sequence:
GCAGCAGCAACAACAGCAGCAGCAGCAACAGCAGCAGCAGCAGCAGCAAGTTAGTGGATTAAAGTCTCCCAAGAGGAATGACAAGCAACCAGCTCTTCAGGGTGAGACGTGACCTTTGGAGGTGACTATAACTGAAGATTGAATTACAGAAGCCAAAAAATTAAATAAATAAAAGGTTTTTGAGTCATGATGCAAGAATC
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-140-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCAGCTCTTCAGGGTGAGACGTGAC
siRNA sets
TCACGTCTCACCCTGAAGA, CACGTCTCACCCTGAAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFOXP1_362_ORF_1
1.0947
0.378378097
0.598935848
288
ORF sequence:
ATGATGCAAGAATCTGGGTCTGAGACAAAAAGTAACGGATCAGCCATCCAGAACGGGTCCAGCGGTGGCAACCACTTACTAGAGTGCGGGGCACTTCGTGACACTCGGTCCAACGGAGAGGCACCAGCGGTGGACCTGGGGGCAGCCGACCTTGCCCACGTCCAGCAGCAGCAACAGCAGCAGCAACAACAGCAGCAGCAGCAACAGCAGCAGCAGCAGCAGCAAGTTAGTGGATTAAAGTCTCCCAAGAGGAATGACAAGCAACCAGCTCTTCAGGGTGAGACGTGA
Peptide sequence:
MMQESGSETKSNGSAIQNGSSGGNHLLECGALRDTRSNGEAPAVDLGAADLAHVQQQQQQQQQQQQQQQQQQQQQVSGLKSPKRNDKQPALQGET
IRESfinder result
IRESfinder score
0.437593973
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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