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mmu_circCpt1a_318
Basic information of circular RNA
PanCircBase ID:
mmu_circCpt1a_318
mm39_Chr. Position ID:
chr19|3408175|3414555|+
Gene name:
Cpt1a
Transcript:
ENSMUST00000237938.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,3909,6302
Genomic length:
6380
Exon/intron sizes in nt:
102,138,78
Flanking exon/introns:
chr19:3406488-3408175|chr19:3414555-3415674
Splice length:
318
Other database IDs:
circAtlas: mmu-Cpt1a_0004
Human Ortholog IDs:
Mature spliced Sequence:
GCTATGGTCAAGGTCTTCTCGGGTCGAAAGCCCATGTTGTACAGCTTCCAGACGTCTCTGCCGCGCCTGCCTGTCCCAGCTGTCAAAGATACCGTGAGCAGGTACCTGGAGTCTGTGAGGCCACTGATGAAGGAGGGAGACTTCCAACGCATGACAGCACTGGCCCAGGATTTTGCTGTCAACCTTGGACCCAAATTGCAGTGGTATTTGAAGCTAAAATCCTGGTGGGCCACAAATTATGTGAGTGACTGGTGGGAGGAATACATCTACCTGCGGGGCCGAGGGCCGATCATGGTTAACAGCAACTACTACGCCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCTGGTGGGCCACAAATT
59.88
CAGAGACGTCTGGAAGCTGT
59.4
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCTGGTGGGCCACAAATT
59.88
GGAAGCTGTACAACATGGGC
59.19
149
PCR template sequence:
ATCCTGGTGGGCCACAAATTATGTGAGTGACTGGTGGGAGGAATACATCTACCTGCGGGGCCGAGGGCCGATCATGGTTAACAGCAACTACTACGCCATGGCTATGGTCAAGGTCTTCTCGGGTCGAAAGCCCATGTTGTACAGCTTCCAGACGTCTCTGCCGCGCCTGCCTGTCCCAGCTGTCAAAGATACCGTGAGCA
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-433-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACTACGCCATGGCTATGGTCAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCPT1A_318_ORF_1
1.2614
0.358934852
0.957841539
633
ORF sequence:
ATGGTCAAGGTCTTCTCGGGTCGAAAGCCCATGTTGTACAGCTTCCAGACGTCTCTGCCGCGCCTGCCTGTCCCAGCTGTCAAAGATACCGTGAGCAGGTACCTGGAGTCTGTGAGGCCACTGATGAAGGAGGGAGACTTCCAACGCATGACAGCACTGGCCCAGGATTTTGCTGTCAACCTTGGACCCAAATTGCAGTGGTATTTGAAGCTAAAATCCTGGTGGGCCACAAATTATGTGAGTGACTGGTGGGAGGAATACATCTACCTGCGGGGCCGAGGGCCGATCATGGTTAACAGCAACTACTACGCCATGGCTATGGTCAAGGTCTTCTCGGGTCGAAAGCCCATGTTGTACAGCTTCCAGACGTCTCTGCCGCGCCTGCCTGTCCCAGCTGTCAAAGATACCGTGAGCAGGTACCTGGAGTCTGTGAGGCCACTGATGAAGGAGGGAGACTTCCAACGCATGACAGCACTGGCCCAGGATTTTGCTGTCAACCTTGGACCCAAATTGCAGTGGTATTTGAAGCTAAAATCCTGGTGGGCCACAAATTATGTGAGTGACTGGTGGGAGGAATACATCTACCTGCGGGGCCGAGGGCCGATCATGGTTAACAGCAACTACTACGCCATG
Peptide sequence:
MVKVFSGRKPMLYSFQTSLPRLPVPAVKDTVSRYLESVRPLMKEGDFQRMTALAQDFAVNLGPKLQWYLKLKSWWATNYVSDWWEEYIYLRGRGPIMVNSNYYAMAMVKVFSGRKPMLYSFQTSLPRLPVPAVKDTVSRYLESVRPLMKEGDFQRMTALAQDFAVNLGPKLQWYLKLKSWWATNYVSDWWEEYIYLRGRGPIMVNSNYYAM
IRESfinder result
IRESfinder score
0.468561354
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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