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mmu_circAtp1b3_557
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp1b3_557
mm39_Chr. Position ID:
chr9|96217431|96227946|-
Gene name:
Atp1b3
Transcript:
ENSMUST00000034983.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,3280,4823,7889,10386
Genomic length:
10515
Exon/intron sizes in nt:
84,51,18,51,08,129
Flanking exon/introns:
chr9:96215747-96217431|chr9:96227946-96246098
Splice length:
557
Other database IDs:
CIRCpedia: MMU_CIRCpedia_211804, circAtlas: mmu-Atp1b3_0001
circAtlas: hsa-ATP1B3_0005, CIRCpedia: HSA_CIRCpedia_43857
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGATCTTGCTCTTCTACCTAGTTTTTTATGGGTTCTTGGCTGCACTCTTCACATTCACAATGTGGGCCATGCTCCAGACTCTGAATGATGAAGTTCCGAAATATCGAGACCAGATTCCTAGTCCAGGACTTATGGTTTTTCCCAAACCGCAGACTGCCTTGGAATATACATTCAGCATGTCTGAGCCACAGACTTACAAAAAGTTGGTTGAAGACCTGGAGAGTTTCCTAAAGCCATATTCTGTGGAAGAACAGAAGAACCTCACAAGTTGTCCTGATGGAGCGCCTTTTATTCAGCATGGTCCTGACTATAGGGCATGTCAGTTTCCAGTCTCCTTGCTTGAAGAATGTAGTGGTGTGACTGATGCTAATTTTGGCTATTCCAAAGGACAGCCTTGCATCCTTGTGAAAATGAACAGAATAATCGATTTAATCCCAGACGGATATCCACAAATATCGTGTTTGCCAAAGGAAGAAAACGCAACTATAGCAACTTATCCTGAATTTGGAGTTTTAGACTTAAAGTATTTTCCATATTATGGGAAAAAACGGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAAAGGAAGAAAACGCA
58.89
TTCAGAGTCTGGAGCATGGC
59.75
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAAAGGAAGAAAACGCA
58.89
TGTGAAGAGTGCAGCCAAGA
59.53
148
PCR template sequence:
ATCGTGTTTGCCAAAGGAAGAAAACGCAACTATAGCAACTTATCCTGAATTTGGAGTTTTAGACTTAAAGTATTTTCCATATTATGGGAAAAAACGGCATGTCTGATCTTGCTCTTCTACCTAGTTTTTTATGGGTTCTTGGCTGCACTCTTCACATTCACAATGTGGGCCATGCTCCAGACTCTGAATGATGAAGTTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-24-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAAAACGGCATGTCTGATCTTGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP1B3_557_ORF_1
0.7967
0.048226767
0.506242641
501
ORF sequence:
ATGTGGGCCATGCTCCAGACTCTGAATGATGAAGTTCCGAAATATCGAGACCAGATTCCTAGTCCAGGACTTATGGTTTTTCCCAAACCGCAGACTGCCTTGGAATATACATTCAGCATGTCTGAGCCACAGACTTACAAAAAGTTGGTTGAAGACCTGGAGAGTTTCCTAAAGCCATATTCTGTGGAAGAACAGAAGAACCTCACAAGTTGTCCTGATGGAGCGCCTTTTATTCAGCATGGTCCTGACTATAGGGCATGTCAGTTTCCAGTCTCCTTGCTTGAAGAATGTAGTGGTGTGACTGATGCTAATTTTGGCTATTCCAAAGGACAGCCTTGCATCCTTGTGAAAATGAACAGAATAATCGATTTAATCCCAGACGGATATCCACAAATATCGTGTTTGCCAAAGGAAGAAAACGCAACTATAGCAACTTATCCTGAATTTGGAGTTTTAGACTTAAAGTATTTTCCATATTATGGGAAAAAACGGCATGTCTGA
Peptide sequence:
MWAMLQTLNDEVPKYRDQIPSPGLMVFPKPQTALEYTFSMSEPQTYKKLVEDLESFLKPYSVEEQKNLTSCPDGAPFIQHGPDYRACQFPVSLLEECSGVTDANFGYSKGQPCILVKMNRIIDLIPDGYPQISCLPKEENATIATYPEFGVLDLKYFPYYGKKRHV
IRESfinder result
IRESfinder score
0.688105806
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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