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mmu_circNmt2_229
Basic information of circular RNA
PanCircBase ID:
mmu_circNmt2_229
mm39_Chr. Position ID:
chr2|3305848|3308069|+
Gene name:
Nmt2
Transcript:
ENSMUST00000081932.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,585,2171
Genomic length:
2221
Exon/intron sizes in nt:
136,43,50
Flanking exon/introns:
chr2:3285443-3305848|chr2:3308069-3310503
Splice length:
229
Other database IDs:
circAtlas: mmu-Nmt2_0016
Human Ortholog IDs:
Mature spliced Sequence:
AAGCCCTGGAGGGGATTTGGGAGCAAAAAAGAAAAAGAAGAAACAAAAGAGAAAAAAGGAGAAGCCAAATTCTGGGGGTACCAAGTCCGACTCTGCATCTGACTCCCAGGAGATTAAGATTCAGCAGTCTTCTAAACACAACGCCATCTGGCAGCAGATTTCAGCAGGAGCAGCCATGGGTGGTGATACTATGGAAGGTGAATGGATAGATTTAAGAATGTATCATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTCAGCAGGAGCAGCCAT
60.03
TGGTACCCCCAGAATTTGGC
59.96
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGCAGCAGATTTCAGCA
59.96
TGGTACCCCCAGAATTTGGC
59.96
166
PCR template sequence:
TTCTAAACACAACGCCATCTGGCAGCAGATTTCAGCAGGAGCAGCCATGGGTGGTGATACTATGGAAGGTGAATGGATAGATTTAAGAATGTATCATAAGAAGCCCTGGAGGGGATTTGGGAGCAAAAAAGAAAAAGAAGAAACAAAAGAGAAAAAAGGAGAAGCCAAATTCTGGGGGTACCAAGTCCGACTCTGCATCT
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-150-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGTATCATAAGAAGCCCTGGAGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNMT2_229_ORF_1
0.5361
-0.047746072
0.034677627
156
ORF sequence:
ATGGGTGGTGATACTATGGAAGGTGAATGGATAGATTTAAGAATGTATCATAAGAAGCCCTGGAGGGGATTTGGGAGCAAAAAAGAAAAAGAAGAAACAAAAGAGAAAAAAGGAGAAGCCAAATTCTGGGGGTACCAAGTCCGACTCTGCATCTGA
Peptide sequence:
MGGDTMEGEWIDLRMYHKKPWRGFGSKKEKEETKEKKGEAKFWGYQVRLCI
IRESfinder result
IRESfinder score
0.475100367
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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