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mmu_circFubp3_1033
Basic information of circular RNA
PanCircBase ID:
mmu_circFubp3_1033
mm39_Chr. Position ID:
chr2|31473166|31498238|+
Gene name:
Fubp3
Transcript:
ENSMUST00000113482.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,9308,11688,12095,13439,15383,17298,20056,21459,22088,24930
Genomic length:
25072
Exon/intron sizes in nt:
1,06,34,50,72,58,16,39,00,00,00,00,00,000
Flanking exon/introns:
chr2:31462965-31473166|chr2:31498238-31501590
Splice length:
1033
Other database IDs:
circAtlas: mmu-Fubp3_0003
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCTGCTAAAATCGATTCAATTCCTCACTTGAATAATTCCACACCTCTGGTGGACCCCTCAGTGTACGGATACGGAGTACAGAAGCGGGCCCTGGATGATGGAGTAGGTAACCAGTTAGGGGCCTTGGTACATCAAAGGGCAGTAATAACAGAAGAATTCAAAGTGCCTGATAAAATGGTTGGATTTATTATTGGCAGGGGAGGTGAGCAGATTTCACGAATTCAAGCAGAATCTGGGTGCAAAATTCAGATTGCCTCAGAGAGTTCTGGGATTCCAGAGAGGCCCTGTGTACTTACCGGAACCCCAGAAAGTATTGAACAAGCCAAACGGCTCCTGGGGCAGATCGTGGATCGATGTCGGAATGGGCCTGGCTTTCACAACGATATGGATGGCAACAGCACAATCCAGGAACTTCTTATCCCTGCATCTAAAGTGGGGCTGGTCATCGGCAAAGGAGGGGAAACGATCAAGCAGTTGCAGGAGCGAACGGGTGTGAAAATGGTCATGATCCAGGATGGCCCGCTGCCTACAGGAGCAGACAAGCCTCTCCGCATCACTGGAGACCCATTTAAAGTACAGCAAGCAAGAGAAATGGTTCTAGAGATTATCCGAGAGAAAGATCAGGCTGACTTCCGGGGTGTGCGCAGCGATTTCACCTCCCGAGCAGGCGGAGGTAGTATAGAGGTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGGAAAGAGAGATCCTTGGTGGCCTCACAGTAACAAGAGGAAGAGGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTAGTGACTGGAGTGTGGGC
60.04
TACACTGAGGGGTCCACCAG
60.54
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTAGTGACTGGAGTGTGGGC
60.04
CGTATCCGTACACTGAGGGG
59.33
166
PCR template sequence:
GGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAGATTGCTGCTAAAATCGATTCAATTCCTCACTTGAATAATTCCACACCTCTGGTGGACCCCTCAGTGTACGGATACGGAGTACAGAAGCGGGCCCTGGATG
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-322-5p(1), mmu-miR-495-3p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGATAGGCAAAGATTGCTGCTAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFUBP3_1033_ORF_1
0.8595
0.277456253
0.975823578
867
ORF sequence:
ATGGTTGGATTTATTATTGGCAGGGGAGGTGAGCAGATTTCACGAATTCAAGCAGAATCTGGGTGCAAAATTCAGATTGCCTCAGAGAGTTCTGGGATTCCAGAGAGGCCCTGTGTACTTACCGGAACCCCAGAAAGTATTGAACAAGCCAAACGGCTCCTGGGGCAGATCGTGGATCGATGTCGGAATGGGCCTGGCTTTCACAACGATATGGATGGCAACAGCACAATCCAGGAACTTCTTATCCCTGCATCTAAAGTGGGGCTGGTCATCGGCAAAGGAGGGGAAACGATCAAGCAGTTGCAGGAGCGAACGGGTGTGAAAATGGTCATGATCCAGGATGGCCCGCTGCCTACAGGAGCAGACAAGCCTCTCCGCATCACTGGAGACCCATTTAAAGTACAGCAAGCAAGAGAAATGGTTCTAGAGATTATCCGAGAGAAAGATCAGGCTGACTTCCGGGGTGTGCGCAGCGATTTCACCTCCCGAGCAGGCGGAGGTAGTATAGAGGTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGGAAAGAGAGATCCTTGGTGGCCTCACAGTAACAAGAGGAAGAGGCCGAGGCCGTAGTGACTGGAGTGTGGGCACTCCTGGGGGCGTCCAGGAAATTACGTACACAGTGCCAGCTGATAAGTGCGGCCTTGTGATAGGCAAAGATTGCTGCTAA
Peptide sequence:
MVGFIIGRGGEQISRIQAESGCKIQIASESSGIPERPCVLTGTPESIEQAKRLLGQIVDRCRNGPGFHNDMDGNSTIQELLIPASKVGLVIGKGGETIKQLQERTGVKMVMIQDGPLPTGADKPLRITGDPFKVQQAREMVLEIIREKDQADFRGVRSDFTSRAGGGSIEVSVPRFVVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGISPERAAQVMGPPDRCQHAARIINELILTAQEREILGGLTVTRGRGRGRSDWSVGTPGGVQEITYTVPADKCGLVIGKDCC
IRESfinder result
IRESfinder score
0.39931624
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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