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mmu_circNmnat3_143
Basic information of circular RNA
PanCircBase ID:
mmu_circNmnat3_143
mm39_Chr. Position ID:
chr9|98236074|98236217|+
Gene name:
Nmnat3
Transcript:
ENSMUST00000112938.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
143
Exon/intron sizes in nt:
143
Flanking exon/introns:
chr9:98178785-98236074|chr9:98236217-98281508
Splice length:
143
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTGGCCACTGCGGGTGTGGAGGTGTGTGACAGCATGAAGAACCGAATCCCTGTGGTGCTTCTGGCCTGTGGTTCCTTCAACCCCATCACGAATATGCACCTGCGCTTGTTTGAGGTGGCCAGAGACCACCTACACCAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAATATGCACCTGCGCTT
60.74
CCAGAAGCACCACAGGGATT
59.96
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGAATATGCACCTGCGC
60.01
CCAGAAGCACCACAGGGATT
59.96
121
PCR template sequence:
TTCCTTCAACCCCATCACGAATATGCACCTGCGCTTGTTTGAGGTGGCCAGAGACCACCTACACCAAACAGGGTGGCCACTGCGGGTGTGGAGGTGTGTGACAGCATGAAGAACCGAATCCCTGTGGTGCTTCTGGCCTGTG
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-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACACCAAACAGGGTGGCCACTGCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNMNAT3_143_ORF_1
0.9711
0.140938483
0.141016477
147
ORF sequence:
ATGAAGAACCGAATCCCTGTGGTGCTTCTGGCCTGTGGTTCCTTCAACCCCATCACGAATATGCACCTGCGCTTGTTTGAGGTGGCCAGAGACCACCTACACCAAACAGGGTGGCCACTGCGGGTGTGGAGGTGTGTGACAGCATGA
Peptide sequence:
MKNRIPVVLLACGSFNPITNMHLRLFEVARDHLHQTGWPLRVWRCVTA
IRESfinder result
IRESfinder score
0.663105367
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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