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mmu_circPxk_295
Basic information of circular RNA
PanCircBase ID:
mmu_circPxk_295
mm39_Chr. Position ID:
chr14|14314427|14318846|-
Gene name:
Pxk
Transcript:
ENSMUST00000036682.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,3195,3764,4341
Genomic length:
4419
Exon/intron sizes in nt:
60,70,87,78
Flanking exon/introns:
chr14:14305838-14314427|chr14:14318846-14321644
Splice length:
295
Other database IDs:
circAtlas: hsa-PXK_0005
Human Ortholog IDs:
Mature spliced Sequence:
ATTCCCACAAAACTAAAAGAGGCATTGCGAATTGCCAAGGAATGCATAGAGAAGAGACTCACCGAGGAACAGAAGCAGATTCACCAGCATCGAAGACTAACGAGAGCCCAGTCACACCATGGGTCTGAGGAAGAAAGGAAAAGGAGAAAGATCTTAGCTCGAAAGAAGTCAAAACGATCTGCTGTTGAAAACAGTGAGGAGCAGCCAGTGAAGCACAGTAACTCCAATAACTCAGGATCTGGGGCCAGCTCACCTCTCACATCCCCATCATCTCCAACTCCACCCTCCACAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAACTCAGGATCTGGGGCCA
59.96
TGCTTCTGTTCCTCGGTGAG
59.68
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACTCAGGATCTGGGGCCA
59.96
CTGCTTCTGTTCCTCGGTGA
59.68
146
PCR template sequence:
GAGGAGCAGCCAGTGAAGCACAGTAACTCCAATAACTCAGGATCTGGGGCCAGCTCACCTCTCACATCCCCATCATCTCCAACTCCACCCTCCACAGCAGATTCCCACAAAACTAAAAGAGGCATTGCGAATTGCCAAGGAATGCATAGAGAAGAGACTCACCGAGGAACAGAAGCAGATTCACCAGCATCGAAGACTAA
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-705(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTCCACAGCAGATTCCCACAAAAC
siRNA sets
TTTTGTGGGAATCTGCTGT,TTGTGGGAATCTGCTGTGG,GTTTTGTGGGAATCTGCTG
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
0.583306021
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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