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mmu_circL3mbtl3_272
Basic information of circular RNA
PanCircBase ID:
mmu_circL3mbtl3_272
mm39_Chr. Position ID:
chr10|26218405|26220621|-
Gene name:
L3mbtl3
Transcript:
ENSMUST00000105519.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,2104
Genomic length:
2216
Exon/intron sizes in nt:
1,60,112
Flanking exon/introns:
chr10:26216938-26218405|chr10:26220621-26228156
Splice length:
272
Other database IDs:
circAtlas: mmu-L3mbtl3_0014
Human Ortholog IDs:
Mature spliced Sequence:
TTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAACTGCTCAAGACGTCTTTTCAGAGAAGACTGGGGTACCCTTCAGGCTGAAGGAGCAATCAAAAGCAGACGGGCTTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGAGGAAAGTATTGCAGC
58.98
CCATCCATGTGGTAGTGGCT
59.45
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAACGGAGATGAATGTCT
59.72
CCATCCATGTGGTAGTGGCT
59.45
166
PCR template sequence:
TTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAATTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCCAAAGACAATTTCGAGTAAATG
siRNA sets
CATTTACTCGAAATTGTCT, TTACTCGAAATTGTCTTTG, ATTTACTCGAAATTGTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCL3MBTL3_272_ORF_1
0.6285
0.104301251
0.214013943
327
ORF sequence:
ATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAATTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAACTGCTCAAGACGTCTTTTCAGAGAAGACTGGGGTACCCTTCAGGCTGAAGGAGCAATCAAAAGCAGACGGGCTTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGAC
Peptide sequence:
MSFGRKVLQPELCSACQRQFRVNEFGALEVITDESEMESVKKATATTTWMVPTAQDVFSEKTGVPFRLKEQSKADGLQFCENCCQYGNGDECLSGGKYCSQNCARHAKD
IRESfinder result
IRESfinder score
0.290959162
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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