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mmu_ciNap1l1_583
Basic information of circular RNA
PanCircBase ID:
mmu_ciNap1l1_583
mm39_Chr. Position ID:
chr10|111329430|111330013|+
Gene name:
Nap1l1
Transcript:
ENSMUST00000065917.16
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
583
Exon/intron sizes in nt:
583
Flanking exon/introns:
chr10:111329430-111330031
Splice length:
583
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTGAGTTACTAAAAGACTCACTGTGACATTGGTTGGTCTTGAGCTCAGATCCACCTGCCTCTCCTTCCCCAGGCACTGGGCTTAAAGGCACGGCCTACCATACCTGCTAAAGACTCAGCATTGCTTGATGCGTGGTAGTGTTTGCCAGCATGTATGTATGTTCCATTTGTGTGACTGATGTCCGTACAAGTCAGAAGAGGACAGCATCCTCTGGAATGGTTCTCTGGTTTTGTGGATGCTGGGAACTGAACCTGGCTCTTCTTCGAGAGCAGACAATGCTGTTAAATCTCTGAACCTTATTAACCTGCTGAGCCATCTTCCTAGCCATATCTGTTATTTCCAAAGGAATGCCTTCGTGTAGCAGGGTTTCTTTTATGTTTTTCTCTTTAATCGCAAAGTCTTAGATGATAACCAGTCCTAACTTCTATGTACTGCAGTTTTTCTCGGTGTATATGCTGGCCTGCTGGCTTATTGTTAGGTATTAGGTATTAACAGCATGCAAATCCAGCAGTTTTAGATGGCTTACTTGATAAGTGGCAAGTAGGCAGGATTGGAGCTTTGTCACAAGCTGACTGACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCATGCAAATCCAGCAGT
59.47
AAGGAGAGGCAGGTGGATCT
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCATGCAAATCCAGCAG
59.47
AAGGAGAGGCAGGTGGATCT
59.96
158
PCR template sequence:
GTATTAGGTATTAACAGCATGCAAATCCAGCAGTTTTAGATGGCTTACTTGATAAGTGGCAAGTAGGCAGGATTGGAGCTTTGTCACAAGCTGACTGACTGTAAGTTGAGTTACTAAAAGACTCACTGTGACATTGGTTGGTCTTGAGCTCAGATCCACCTGCCTCTCCTTCCCCAGGCACTGGGCTTAAAGGCACGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-298-5p(1), mmu-miR-214-3p(1), mmu-miR-26b-5p(1), mmu-miR-758-3p(1), mmu-miR-466d-3p(1), mmu-miR-499-5p(1), mmu-miR-377-3p(1), mmu-miR-466b-3p(1), mmu-miR-146b-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGCTGACTGACTGTAAGTTGAGTTA
siRNA sets
CAACTTACAGTCAGTCAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.739936417
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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