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mmu_circAp3b1_151
Basic information of circular RNA
PanCircBase ID:
mmu_circAp3b1_151
mm39_Chr. Position ID:
chr13|94527299|94531301|+
Gene name:
Ap3b1
Transcript:
ENSMUST00000022196.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,3927
Genomic length:
4002
Exon/intron sizes in nt:
76,75
Flanking exon/introns:
chr13:94495739-94527299|chr13:94531301-94539845
Splice length:
151
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34792, circAtlas: mmu-Ap3b1_0006
circAtlas: hsa-AP3B1_0007, CIRCpedia: HSA_CIRCpedia_52704
Human Ortholog IDs:
Mature spliced Sequence:
GAATGAAGACCTGAAGCAGATGCTGGAGAGCAACAAAGATTCTGCCAAGCTAGATGCTATGAAGCGAATTGTTGGGATGATTGCGAAGGGGAAAAATGCCTCGGAACTCTTCCCTGCTGTTGTGAAGAATGTGGCCAGTAAAAACATCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCGAAGGGGAAAAATGCC
59.68
GCTTGGCAGAATCTTTGTTGC
58.94
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGAAGGGGAAAAATGCCTC
59.83
AGCTTGGCAGAATCTTTGTTGC
60.29
120
PCR template sequence:
ATGATTGCGAAGGGGAAAAATGCCTCGGAACTCTTCCCTGCTGTTGTGAAGAATGTGGCCAGTAAAAACATCGAGGAATGAAGACCTGAAGCAGATGCTGGAGAGCAACAAAGATTCTGCCAAGCTAGATGCTATGAAGCGAATTGTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAAACATCGAGGAATGAAGACCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP3B1_151_ORF_1
1.2115
0.39995117
0.473437499
174
ORF sequence:
ATGTGGCCAGTAAAAACATCGAGGAATGAAGACCTGAAGCAGATGCTGGAGAGCAACAAAGATTCTGCCAAGCTAGATGCTATGAAGCGAATTGTTGGGATGATTGCGAAGGGGAAAAATGCCTCGGAACTCTTCCCTGCTGTTGTGAAGAATGTGGCCAGTAAAAACATCGAG
Peptide sequence:
MWPVKTSRNEDLKQMLESNKDSAKLDAMKRIVGMIAKGKNASELFPAVVKNVASKNIE
IRESfinder result
IRESfinder score
0.134793527
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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