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mmu_circFbxo47_326
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo47_326
mm39_Chr. Position ID:
chr11|97759417|97768953|-
Gene name:
Fbxo47
Transcript:
ENSMUST00000093939.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,4266,9365
Genomic length:
9536
Exon/intron sizes in nt:
78,77,171
Flanking exon/introns:
chr11:97755993-97759417|chr11:97768953-97770209
Splice length:
326
Other database IDs:
circAtlas: mmu-Fbxo47_0008
Human Ortholog IDs:
Mature spliced Sequence:
TGAAAGATATTGGCATGTTAAGTATGGTGTCTAAAACAGTCAGCCAGCACATAATTAATTATATCTCAACATCATCTGGAAGTAGGAGACTTTTACTACAGAACTTTCATGACCTTGATCTGCCTGGCACAAAAGAAGAGACTGCTCTACTGGAGCACTACAGAGCTCTAGGTCTACTATTTAAAAGATGCACCTTGCTGCTTCCCACCAAGGAAAGACTGAAGTACATTCACAAGATACTCTCAGAAGTATCCTGCTTTAAATTCAGTGGCTGTTCAGTTCCTTTGCAGTGTTTAGGATTATCATGTTACGGCATGTTTTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGTTCAGTTCCTTTGCAG
60
AGTCTCCTACTTCCAGATGATGT
58.12
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGTTCAGTTCCTTTGCA
58.97
AGTCTCCTACTTCCAGATGATGT
58.12
148
PCR template sequence:
CATTCACAAGATACTCTCAGAAGTATCCTGCTTTAAATTCAGTGGCTGTTCAGTTCCTTTGCAGTGTTTAGGATTATCATGTTACGGCATGTTTTTACAGTGAAAGATATTGGCATGTTAAGTATGGTGTCTAAAACAGTCAGCCAGCACATAATTAATTATATCTCAACATCATCTGGAAGTAGGAGACTTTTACTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGTTTTTACAGTGAAAGATATTGG
siRNA sets
TATCTTTCACTGTAAAAAC, ATCTTTCACTGTAAAAACA, AATATCTTTCACTGTAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO47_326_ORF_1
0.5317
-0.142710744
0.087718846
348
ORF sequence:
ATGTTACGGCATGTTTTTACAGTGAAAGATATTGGCATGTTAAGTATGGTGTCTAAAACAGTCAGCCAGCACATAATTAATTATATCTCAACATCATCTGGAAGTAGGAGACTTTTACTACAGAACTTTCATGACCTTGATCTGCCTGGCACAAAAGAAGAGACTGCTCTACTGGAGCACTACAGAGCTCTAGGTCTACTATTTAAAAGATGCACCTTGCTGCTTCCCACCAAGGAAAGACTGAAGTACATTCACAAGATACTCTCAGAAGTATCCTGCTTTAAATTCAGTGGCTGTTCAGTTCCTTTGCAGTGTTTAGGATTATCATGTTACGGCATGTTTTTACAG
Peptide sequence:
MLRHVFTVKDIGMLSMVSKTVSQHIINYISTSSGSRRLLLQNFHDLDLPGTKEETALLEHYRALGLLFKRCTLLLPTKERLKYIHKILSEVSCFKFSGCSVPLQCLGLSCYGMFLQ
IRESfinder result
IRESfinder score
0.848418685
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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