top of page
mmu_circAtp2a2_244
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2a2_244
mm39_Chr. Position ID:
chr5|122627300|122629848|-
Gene name:
Atp2a2
Transcript:
ENSMUST00000179939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2443
Genomic length:
2548
Exon/intron sizes in nt:
139,105
Flanking exon/introns:
chr5:122611353-122627300|chr5:122629848-122638793
Splice length:
244
Other database IDs:
circBase: mmu_circ_0012080, CIRCpedia: MMU_CIRCpedia_5790, circAtlas: mmu-Atp2a2_0001
circBase: hsa_circ_0097268, circAtlas: hsa-ATP2A2_0001, CIRCpedia: HSA_CIRCpedia_6606
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGTGGCAGGAAAGAAATGCTGAAAATGCAATAGAAGCTCTTAAGGAATATGAGCCTGAAATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAGAAAGAGTGTGCAACG
59.74
ACCCACGATTGCATTGGCTA
60.03
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAGAAAGAGTGTGCAACG
59.74
CACACCCACGATTGCATTGG
60.11
167
PCR template sequence:
TATGAGCCTGAAATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGGTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGT
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-484(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGAAATTGCTGGTTTTGGCTTGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2A2_244_ORF_1
0.9908
-0.063569448
0.101733628
207
ORF sequence:
ATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGGTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGTGGCAGGAAAGAAATGCTGA
Peptide sequence:
MGKVYRQDRKSVQRIKAKDIVPGDIVEIAGFGLVRGRGRNDYSLCRAVCNSAYLGSQCNRGCVAGKKC
IRESfinder result
IRESfinder score
0.49705017
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page