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mmu_ciNcstn_164
Basic information of circular RNA
PanCircBase ID:
mmu_ciNcstn_164
mm39_Chr. Position ID:
chr1|171900179|171900343|-
Gene name:
Ncstn
Transcript:
ENSMUST00000003550.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
164
Exon/intron sizes in nt:
164
Flanking exon/introns:
chr1:171900142-171900343
Splice length:
164
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGGCTCCAAGCCGTGCAGGTGGACCCAGGCAGCAGGCACTGGGTGGGAGAGTTGTGAAGAGAGCCGGAGCTAGACCAGTTGAAGGTGGAGAAATGGCCCTTGGGGTATATGAGGACTAGTCTGAGGTATCTTGAAGGCCTTCTCCATAACTACTCTCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGGTGGAGAAATGGCCC
59.96
CACAACTCTCCCACCCAGTG
60.25
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGGAGAAATGGCCCTTG
59.96
CACAACTCTCCCACCCAGTG
60.25
138
PCR template sequence:
GTTGAAGGTGGAGAAATGGCCCTTGGGGTATATGAGGACTAGTCTGAGGTATCTTGAAGGCCTTCTCCATAACTACTCTCTCGTAGGTGGCTCCAAGCCGTGCAGGTGGACCCAGGCAGCAGGCACTGGGTGGGAGAGTTGTGAAGAGAGCCGGAGCTAGACCA
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-149-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAACTACTCTCTCGTAGGTGGCTCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINCSTN_164_ORF_1
0.88
-0.068669855
0.049071722
129
ORF sequence:
ATGAGGACTAGTCTGAGGTATCTTGAAGGCCTTCTCCATAACTACTCTCTCGTAGGTGGCTCCAAGCCGTGCAGGTGGACCCAGGCAGCAGGCACTGGGTGGGAGAGTTGTGAAGAGAGCCGGAGCTAG
Peptide sequence:
MRTSLRYLEGLLHNYSLVGGSKPCRWTQAAGTGWESCEESRS
IRESfinder result
IRESfinder score
0.365017833
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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