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mmu_ciNup214_423
Basic information of circular RNA
PanCircBase ID:
mmu_ciNup214_423
mm39_Chr. Position ID:
chr2|31872686|31873109|+
Gene name:
Nup214
Transcript:
ENSMUST00000065398.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
423
Exon/intron sizes in nt:
423
Flanking exon/introns:
chr2:31872686-31873134
Splice length:
423
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACAACTGCTTTGCTTATTCTCTGGACTCTACTGCAGCCATTCTAGCCATGTGAGATCCTCTGTCCCTACTCAGGAGAGTGTGGGAGCCAGTCTCACACTTAATGTGAGTTATTTAGTTATTTAGCTTGAAATGGATCTTACATTTTTACAAGAATTCCTCACCATTTCCCTAGTAATAATCCTGTAGAGAACCCACTACTTTTAAGAAATTGGGCCAATTAATTGTTGCATCTGTGAATTATTGTTATTCATCACAGGATAGACCTTTGGTAAAGCCATAGTACTTTGTTTTATTTGATTGGTTGGTTGTTTTTTGTTTGTTTGTTTCTTTCTTTTTTTCTTTTCCCTAGGTAGCTCTTGTAGCACATGGTGGCTATTCCAAATGAATGCTGCTTTTTGCTTGCTGACATTGGTTATTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCACATGGTGGCTATTCCA
59.37
AGACTGGCTCCCACACTCTC
60.9
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCACATGGTGGCTATTCCA
59.37
GAGACTGGCTCCCACACTCT
60.9
156
PCR template sequence:
TTTGTTTCTTTCTTTTTTTCTTTTCCCTAGGTAGCTCTTGTAGCACATGGTGGCTATTCCAAATGAATGCTGCTTTTTGCTTGCTGACATTGGTTATTTAGTAACAACTGCTTTGCTTATTCTCTGGACTCTACTGCAGCCATTCTAGCCATGTGAGATCCTCTGTCCCTACTCAGGAGAGTGTGGGAGCCAGTCTCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-382-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTGGTTATTTAGTAACAACTGCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINUP214_423_ORF_1
0.7124
-0.269807326
0.013319156
102
ORF sequence:
ATGGTGGCTATTCCAAATGAATGCTGCTTTTTGCTTGCTGACATTGGTTATTTAGTAACAACTGCTTTGCTTATTCTCTGGACTCTACTGCAGCCATTCTAG
Peptide sequence:
MVAIPNECCFLLADIGYLVTTALLILWTLLQPF
IRESfinder result
IRESfinder score
0.975576056
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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