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mmu_ciPex11b_281
Basic information of circular RNA
PanCircBase ID:
mmu_ciPex11b_281
mm39_Chr. Position ID:
chr3|96544105|96544386|+
Gene name:
Pex11b
Transcript:
ENSMUST00000144962.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
281
Exon/intron sizes in nt:
281
Flanking exon/introns:
chr3:96544105-96544446
Splice length:
281
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAAGCAGACCTTCCTCTTATCATCCTCAGCTGGTAGCCCATGGCCTCTCCTCCCGTTCTGCCAGTTCGCCATCATTTGCCACTCTCCTGCATGCCTCCAGTTGAGGTCAGAGAACAGGTATAAGGAAGTTAGCACTGATTGGAAAAACACGGCACGAGAACACTAAACTGGCACAAAAATGAATTACGATTGGAAGTTAAGAAAAAGAACAAATTATTTTTACTCTTTCTTCCTGTATGTTATTATTGCTTGCTCAACTTTTATTTTTCTCTTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGTATGTTATTATTGCTTGCTCA
58.95
TGCAGGAGAGTGGCAAATGA
59.6
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTATGTTATTATTGCTTGCTCA
57.74
TGCAGGAGAGTGGCAAATGA
59.6
141
PCR template sequence:
AAAATGAATTACGATTGGAAGTTAAGAAAAAGAACAAATTATTTTTACTCTTTCTTCCTGTATGTTATTATTGCTTGCTCAACTTTTATTTTTCTCTTCCGTAAGTAAAGCAGACCTTCCTCTTATCATCCTCAGCTGGTAGCCCATGGCCTCTCCTCCCGTTCTGCCAGTTCGCCATCATTTGCCACTCTCCTGCATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ATTTTTCTCTTCCGTAAGTAAAGCAG
siRNA sets
TTTACTTACGGAAGAGAAA,TTACTTACGGAAGAGAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPEX11B_281_ORF_1
0.631
-0.393635048
0.007142588
105
ORF sequence:
ATGAATTACGATTGGAAGTTAAGAAAAAGAACAAATTATTTTTACTCTTTCTTCCTGTATGTTATTATTGCTTGCTCAACTTTTATTTTTCTCTTCCGTAAGTAA
Peptide sequence:
MNYDWKLRKRTNYFYSFFLYVIIACSTFIFLFRK
IRESfinder result
IRESfinder score
0.791934871
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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