top of page
mmu_circAtp1b3_236
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp1b3_236
mm39_Chr. Position ID:
chr9|96220711|96222439|-
Gene name:
Atp1b3
Transcript:
ENSMUST00000034983.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,1543
Genomic length:
1728
Exon/intron sizes in nt:
51,185
Flanking exon/introns:
chr9:96217515-96220711|chr9:96222439-96225320
Splice length:
236
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224559, circAtlas: mmu-Atp1b3_0005
circBase: hsa_circ_0067592, circAtlas: hsa-ATP1B3_0011, CIRCpedia: HSA_CIRCpedia_43858
Human Ortholog IDs:
Mature spliced Sequence:
CATATTCTGTGGAAGAACAGAAGAACCTCACAAGTTGTCCTGATGGAGCGCCTTTTATTCAGCATGGTCCTGACTATAGGGCATGTCAGTTTCCAGTCTCCTTGCTTGAAGAATGTAGTGGTGTGACTGATGCTAATTTTGGCTATTCCAAAGGACAGCCTTGCATCCTTGTGAAAATGAACAGAATAATCGATTTAATCCCAGACGGATATCCACAAATATCGTGTTTGCCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCCTTGCATCCTTGTGA
59.89
ACTGGAAACTGACATGCCCT
59.23
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACAGCCTTGCATCCTTG
60.32
AAAAGGCGCTCCATCAGGAC
60.68
141
PCR template sequence:
TTTTGGCTATTCCAAAGGACAGCCTTGCATCCTTGTGAAAATGAACAGAATAATCGATTTAATCCCAGACGGATATCCACAAATATCGTGTTTGCCAAAGCATATTCTGTGGAAGAACAGAAGAACCTCACAAGTTGTCCTGATGGAGCGCCTTTTATTCAGCATGGTCCTGACTATAGGGCATGTCAGTTTCCAGTCTC
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-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTTTGCCAAAGCATATTCTGTGGA
siRNA sets
CACAGAATATGCTTTGGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP1B3_236_ORF_1
0.8259
-0.094931729
0.059291192
186
ORF sequence:
ATGAACAGAATAATCGATTTAATCCCAGACGGATATCCACAAATATCGTGTTTGCCAAAGCATATTCTGTGGAAGAACAGAAGAACCTCACAAGTTGTCCTGATGGAGCGCCTTTTATTCAGCATGGTCCTGACTATAGGGCATGTCAGTTTCCAGTCTCCTTGCTTGAAGAATGTAGTGGTGTGA
Peptide sequence:
MNRIIDLIPDGYPQISCLPKHILWKNRRTSQVVLMERLLFSMVLTIGHVSFQSPCLKNVVV
IRESfinder result
IRESfinder score
0.692624064
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page