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mmu_circFubp3_346
Basic information of circular RNA
PanCircBase ID:
mmu_circFubp3_346
mm39_Chr. Position ID:
chr2|31494625|31498238|+
Gene name:
Fubp3
Transcript:
ENSMUST00000113482.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,629,3471
Genomic length:
3613
Exon/intron sizes in nt:
10,31,01,142
Flanking exon/introns:
chr2:31493327-31494625|chr2:31498238-31501590
Splice length:
346
Other database IDs:
circAtlas: mmu-Fubp3_0018
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_63163
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGGAAAGAGAGATCCTTGGTGGCCTCACAGTAACAAGAGGAAGAGGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACGTACACAGTGCCAGCTG
60.04
ATTGGATCCTCACACCAGCG
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCGTCCAGGAAATTACGT
60.39
ATTGGATCCTCACACCAGCG
60.11
156
PCR template sequence:
GGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAGGTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAAC
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-495-3p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGATAGGCAAAGGTGTCTGTGCCTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFUBP3_346_ORF_1
0.9829
0.276029121
0.481745803
309
ORF sequence:
ATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGGAAAGAGAGATCCTTGGTGGCCTCACAGTAACAAGAGGAAGAGGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAGGTGTCTGTGCCTAG
Peptide sequence:
MIKKIQNDAGVRIQFKPDDGISPERAAQVMGPPDRCQHAARIINELILTAQEREILGGLTVTRGRGRGRSDWSVGTPGGVQEITYTVPADKCGLVIGKGVCA
IRESfinder result
IRESfinder score
0.342565482
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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