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mmu_circArhgef12_306
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_306
mm39_Chr. Position ID:
chr9|42916839|42919407|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,14,13
Exon/intron offsets:
0,292,2472
Genomic length:
2568
Exon/intron sizes in nt:
99,111,96
Flanking exon/introns:
chr9:42913196-42916839|chr9:42919407-42921474
Splice length:
306
Other database IDs:
circBase: mmu_circ_0015592, CIRCpedia: MMU_CIRCpedia_19975, circAtlas: mmu-Arhgef12_0034
Human Ortholog IDs:
Mature spliced Sequence:
CAGGAGCCGCAGTCGCTGGTCGGCAGTCCCTCCACCCGGGGCGCCCCTCACATCATTGGAGCAGAGGATGATGATTTTGGTACTGAGCATGAGCAGATCAATGGACAGTGCAGCTGTTTCCAGAGCATTGAATTGCTGAAGTCTCGCCCTGCTCACTTGGCTGTTTTCTTACACCATGTAGTCTCACAGTTTGACCCTGCAACATTGCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCGTGTCTTCCTGGAGTTT
60.25
TCTGCTCATGCTCAGTACCA
58.44
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACTCCAAGGAGACTCGGC
59.68
TCTGCTCATGCTCAGTACCA
58.44
161
PCR template sequence:
GCTCTGTTATCTCTATTCAGACCTGTATAAGCAGACAAACTCCAAGGAGACTCGGCGTGTCTTCCTGGAGTTTCATCAGTTCTTCTTGGACCGGTCTGCACAGGAGCCGCAGTCGCTGGTCGGCAGTCCCTCCACCCGGGGCGCCCCTCACATCATTGGAGCAGAGGATGATGATTTTGGTACTGAGCATGAGCAGATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCGGTCTGCACAGGAGCCGCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.78661506
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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