top of page
mmu_circFbxo28_249
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo28_249
mm39_Chr. Position ID:
chr1|182153818|182157548|-
Gene name:
Fbxo28
Transcript:
ENSMUST00000051431.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,3620
Genomic length:
3730
Exon/intron sizes in nt:
1,39,110
Flanking exon/introns:
chr1:182145570-182153818|chr1:182157548-182168887
Splice length:
249
Other database IDs:
CIRCpedia: MMU_CIRCpedia_12445, circAtlas: mmu-Fbxo28_0002
circBase: hsa_circ_0016567, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_117830
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTAAGAGAATGGACCTGGTCTGTCAGAGAATGTTGAATCAGGGGTTTCTGAAAGTGGAGAGGTTCCATAACCTGTGTCAGAAGCAAGTTAAAGCACAGCTACCGAGGAGAGAGTCAGAAAGAAGAAACCATTCTTTAGCTCGTCATGCAGACATCCTTGCCGCTGTGGAAACGAGGTTGTCACTGTTGAATATGACCTTCATGAAGTATGTGGATTCCAACCTCTGTTGCTTCATCCCAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTGGAAACGAGGTTGTC
59.41
CTCCACTTTCAGAAACCCCTGA
59.89
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTGGAAACGAGGTTGTC
59.41
TCTCCACTTTCAGAAACCCCTG
59.89
148
PCR template sequence:
TGCAGACATCCTTGCCGCTGTGGAAACGAGGTTGTCACTGTTGAATATGACCTTCATGAAGTATGTGGATTCCAACCTCTGTTGCTTCATCCCAGGAAAGGTTTGTAAGAGAATGGACCTGGTCTGTCAGAGAATGTTGAATCAGGGGTTTCTGAAAGTGGAGAGGTTCCATAACCTGTGTCAGAAGCAAGTTAAAGCAC
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-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCCCAGGAAAGGTTTGTAAGAGAA
siRNA sets
TTCTCTTACAAACCTTTCC, TTACAAACCTTTCCTGGGA, TCTTACAAACCTTTCCTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO28_249_ORF_1
0.9791
0.053116881
0.572076479
486
ORF sequence:
ATGGACCTGGTCTGTCAGAGAATGTTGAATCAGGGGTTTCTGAAAGTGGAGAGGTTCCATAACCTGTGTCAGAAGCAAGTTAAAGCACAGCTACCGAGGAGAGAGTCAGAAAGAAGAAACCATTCTTTAGCTCGTCATGCAGACATCCTTGCCGCTGTGGAAACGAGGTTGTCACTGTTGAATATGACCTTCATGAAGTATGTGGATTCCAACCTCTGTTGCTTCATCCCAGGAAAGGTTTGTAAGAGAATGGACCTGGTCTGTCAGAGAATGTTGAATCAGGGGTTTCTGAAAGTGGAGAGGTTCCATAACCTGTGTCAGAAGCAAGTTAAAGCACAGCTACCGAGGAGAGAGTCAGAAAGAAGAAACCATTCTTTAGCTCGTCATGCAGACATCCTTGCCGCTGTGGAAACGAGGTTGTCACTGTTGAATATGACCTTCATGAAGTATGTGGATTCCAACCTCTGTTGCTTCATCCCAGGAAAG
Peptide sequence:
MDLVCQRMLNQGFLKVERFHNLCQKQVKAQLPRRESERRNHSLARHADILAAVETRLSLLNMTFMKYVDSNLCCFIPGKVCKRMDLVCQRMLNQGFLKVERFHNLCQKQVKAQLPRRESERRNHSLARHADILAAVETRLSLLNMTFMKYVDSNLCCFIPGK
IRESfinder result
IRESfinder score
0.718692397
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page