top of page
mmu_circFbxo11_440
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo11_440
mm39_Chr. Position ID:
chr17|88300574|88303771|-
Gene name:
Fbxo11
Transcript:
ENSMUST00000130379.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
20,19,18,17
Exon/intron offsets:
0,590,2889,3120
Genomic length:
3197
Exon/intron sizes in nt:
108,111,144,77
Flanking exon/introns:
chr17:88300355-88300574|chr17:88303771-88304758
Splice length:
440
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AACTGGAAGCAACCCCAAAATTAGACGCAACAAAATTTGGGGAGGACAGAATGGTGGAATTCTAGTTTATAATTCTGGTCTAGGCTGTATAGAAGACAATGAAATATTTGACAACGCGATGGCTGGAGTCTGGATTAAAACAGATAGTAATCCTACGCTAAGAAGAAATAAAATCCATGATGGAAGAGATGGTGGCATCTGTATATTTAATGGGGGTCGAGGTCTCCTTGAAGAAAATGATATTTTCAGGAACGCTCAAGCAGGTGTCCTCATCAGCACTAACAGTCATCCAGTATTAAGGAAAAACAGAATATTTGATGGATTTGCTGCAGGTATTGAAATTACAAATCATGCAACTGCAACACTCGAAGGCAATCAGATCTTTAACAACCGATTTGGAGGCTTATTTTTAGCATCTGGTGTTAATGTGACAATGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACTGCAACACTCGAAGGC
60.04
CACCATTCTGTCCTCCCCAA
59.3
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACTGCAACACTCGAAGG
60.04
CACCATTCTGTCCTCCCCAA
59.3
144
PCR template sequence:
ATTACAAATCATGCAACTGCAACACTCGAAGGCAATCAGATCTTTAACAACCGATTTGGAGGCTTATTTTTAGCATCTGGTGTTAATGTGACAATGAAAGAACTGGAAGCAACCCCAAAATTAGACGCAACAAAATTTGGGGAGGACAGAATGGTGGAATTCTAGTTTATAATTCTGGTCTAGGCTGTATAGAAGACAAT
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-23b-3p(1), mmu-miR-429-3p(1), mmu-miR-23a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGACAATGAAAGAACTGGAAGCAAC
siRNA sets
GTTGCTTCCAGTTCTTTCA, TTCCAGTTCTTTCATTGTC, TTGCTTCCAGTTCTTTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO11_440_ORF_1
1.0434
-0.01263139
0.358416079
387
ORF sequence:
ATGGCTGGAGTCTGGATTAAAACAGATAGTAATCCTACGCTAAGAAGAAATAAAATCCATGATGGAAGAGATGGTGGCATCTGTATATTTAATGGGGGTCGAGGTCTCCTTGAAGAAAATGATATTTTCAGGAACGCTCAAGCAGGTGTCCTCATCAGCACTAACAGTCATCCAGTATTAAGGAAAAACAGAATATTTGATGGATTTGCTGCAGGTATTGAAATTACAAATCATGCAACTGCAACACTCGAAGGCAATCAGATCTTTAACAACCGATTTGGAGGCTTATTTTTAGCATCTGGTGTTAATGTGACAATGAAAGAACTGGAAGCAACCCCAAAATTAGACGCAACAAAATTTGGGGAGGACAGAATGGTGGAATTCTAG
Peptide sequence:
MAGVWIKTDSNPTLRRNKIHDGRDGGICIFNGGRGLLEENDIFRNAQAGVLISTNSHPVLRKNRIFDGFAAGIEITNHATATLEGNQIFNNRFGGLFLASGVNVTMKELEATPKLDATKFGEDRMVEF
IRESfinder result
IRESfinder score
0.614037892
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page