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mmu_circAcat1_588
Basic information of circular RNA
PanCircBase ID:
mmu_circAcat1_588
mm39_Chr. Position ID:
chr9|53500477|53506089|-
Gene name:
Acat1
Transcript:
ENSMUST00000034547.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,2129,2790,5228,5516
Genomic length:
5612
Exon/intron sizes in nt:
96,151,144,101,96
Flanking exon/introns:
chr9:53498866-53500477|chr9:53506089-53506582
Splice length:
588
Other database IDs:
circBase: mmu_circ_0015670, CIRCpedia: MMU_CIRCpedia_22673, circAtlas: mmu-Acat1_0003
Human Ortholog IDs:
Mature spliced Sequence:
GGATTCCAAAAGAAGAAGTGAAGGAAGTCTACATGGGCAATGTCATCCAAGGGGGTGAAGGACAGGCCCCTACCAGGCAAGCAACACTGGGCGCAGGTTTACCTATTTCCACTCCATGCACCACAGTAAACAAGGTTTGTGCTTCAGGAATGAAAGCCATCATGATGGCCTCTCAAAGTCTTATGTGTGGACATCAGGATGTGATGGTGGCAGGCGGGATGGAGAGCATGTCCAATGTCCCATACGTAATGAGCAGAGGAGCAACACCATATGGTGGGGTAAAACTTGAAGACCTGATTGTAAAAGACGGGCTAACTGATGTCTACAATAAAATTCATATGGGTAACTGTGCTGAGAATACTGCAAAGAAGATGAATATCTCACGGCAGGAACAGGATACGTACGCTCTCAGCTCTTACACCAGAAGTAAAGAAGCGTGGGACGCAGGGAAGTTTGCCAGTGAGATTACTCCCATCACCATCTCAGTGAAAGGTAAACCAGATGTGGTGGTGAAAGAAGATGAAGAATACAAGCGTGTTGACTTTAGTAAAGTGCCAAAGCTCAAGACCGTGTTCCAGAAAGAAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGATGTGGTGGTGAAAGA
57.43
CCTTCACCCCCTTGGATGAC
60.03
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGATGTGGTGGTGAAAGA
57.43
GTCCTTCACCCCCTTGGATG
60.03
154
PCR template sequence:
AAAGGTAAACCAGATGTGGTGGTGAAAGAAGATGAAGAATACAAGCGTGTTGACTTTAGTAAAGTGCCAAAGCTCAAGACCGTGTTCCAGAAAGAAAATGGGATTCCAAAAGAAGAAGTGAAGGAAGTCTACATGGGCAATGTCATCCAAGGGGGTGAAGGACAGGCCCCTACCAGGCAAGCAACACTGGGCGCAGGTTT
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-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-216a-5p(1), mmu-miR-433-3p(1), mmu-miR-499-5p(1), mmu-miR-5101(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAAGAAAATGGGATTCCAAAAGA
siRNA sets
TTTTGGAATCCCATTTTCT,TTTGGAATCCCATTTTCTT,CTTTTGGAATCCCATTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACAT1_588_ORF_1
1.116
0.245377288
0.997662358
1143
ORF sequence:
ATGGGCAATGTCATCCAAGGGGGTGAAGGACAGGCCCCTACCAGGCAAGCAACACTGGGCGCAGGTTTACCTATTTCCACTCCATGCACCACAGTAAACAAGGTTTGTGCTTCAGGAATGAAAGCCATCATGATGGCCTCTCAAAGTCTTATGTGTGGACATCAGGATGTGATGGTGGCAGGCGGGATGGAGAGCATGTCCAATGTCCCATACGTAATGAGCAGAGGAGCAACACCATATGGTGGGGTAAAACTTGAAGACCTGATTGTAAAAGACGGGCTAACTGATGTCTACAATAAAATTCATATGGGTAACTGTGCTGAGAATACTGCAAAGAAGATGAATATCTCACGGCAGGAACAGGATACGTACGCTCTCAGCTCTTACACCAGAAGTAAAGAAGCGTGGGACGCAGGGAAGTTTGCCAGTGAGATTACTCCCATCACCATCTCAGTGAAAGGTAAACCAGATGTGGTGGTGAAAGAAGATGAAGAATACAAGCGTGTTGACTTTAGTAAAGTGCCAAAGCTCAAGACCGTGTTCCAGAAAGAAAATGGGATTCCAAAAGAAGAAGTGAAGGAAGTCTACATGGGCAATGTCATCCAAGGGGGTGAAGGACAGGCCCCTACCAGGCAAGCAACACTGGGCGCAGGTTTACCTATTTCCACTCCATGCACCACAGTAAACAAGGTTTGTGCTTCAGGAATGAAAGCCATCATGATGGCCTCTCAAAGTCTTATGTGTGGACATCAGGATGTGATGGTGGCAGGCGGGATGGAGAGCATGTCCAATGTCCCATACGTAATGAGCAGAGGAGCAACACCATATGGTGGGGTAAAACTTGAAGACCTGATTGTAAAAGACGGGCTAACTGATGTCTACAATAAAATTCATATGGGTAACTGTGCTGAGAATACTGCAAAGAAGATGAATATCTCACGGCAGGAACAGGATACGTACGCTCTCAGCTCTTACACCAGAAGTAAAGAAGCGTGGGACGCAGGGAAGTTTGCCAGTGAGATTACTCCCATCACCATCTCAGTGAAAGGTAAACCAGATGTGGTGGTGAAAGAAGATGAAGAATACAAGCGTGTTGACTTTAGTAAAGTGCCAAAGCTCAAGACCGTGTTCCAGAAAGAAAAT
Peptide sequence:
MGNVIQGGEGQAPTRQATLGAGLPISTPCTTVNKVCASGMKAIMMASQSLMCGHQDVMVAGGMESMSNVPYVMSRGATPYGGVKLEDLIVKDGLTDVYNKIHMGNCAENTAKKMNISRQEQDTYALSSYTRSKEAWDAGKFASEITPITISVKGKPDVVVKEDEEYKRVDFSKVPKLKTVFQKENGIPKEEVKEVYMGNVIQGGEGQAPTRQATLGAGLPISTPCTTVNKVCASGMKAIMMASQSLMCGHQDVMVAGGMESMSNVPYVMSRGATPYGGVKLEDLIVKDGLTDVYNKIHMGNCAENTAKKMNISRQEQDTYALSSYTRSKEAWDAGKFASEITPITISVKGKPDVVVKEDEEYKRVDFSKVPKLKTVFQKEN
IRESfinder result
IRESfinder score
0.289370824
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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