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mmu_circAtp13a3_589
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_589
mm39_Chr. Position ID:
chr16|30166867|30170226|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,1635,2913,3179
Genomic length:
3359
Exon/intron sizes in nt:
62,18,91,58,180
Flanking exon/introns:
chr16:30166594-30166867|chr16:30170226-30171085
Splice length:
589
Other database IDs:
circAtlas: mmu-Atp13a3_0033
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGACAGCTGAACCTTGT
59.45
GCTCCTCCCCCATTCCTTTC
60.11
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGACAGCTGAACCTTGT
59.45
TGTACTGCTCCTCCCCCATT
60.25
173
PCR template sequence:
ACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(2), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-326-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAAAATACCCGGAGAAAGTGTTCC
siRNA sets
ACTTTCTCCGGGTATTTTC, TTTCTCCGGGTATTTTCCA, CTTTCTCCGGGTATTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_589_ORF_1
0.9278
0.05437656
0.669021306
558
ORF sequence:
ATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGGAGAAAGTGTTCCAGTGACAAAGACTAA
Peptide sequence:
MGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGFSTSKGQLVRSILYPKPTDFKLYRDAYLFLLCLVVVAGIGFIYTIINSILNEKEVQEIIIKSLDIITITVPPALPAAMTAGIVYAQRRLKKVGIFCISPQRINICGQLNLVCFDKTGTLTEDGLDLWGIQRVENTRRKCSSDKD
IRESfinder result
IRESfinder score
0.794929572
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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