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mmu_circSppl2a_419
Basic information of circular RNA
PanCircBase ID:
mmu_circSppl2a_419
mm39_Chr. Position ID:
chr2|126754562|126761660|-
Gene name:
Sppl2a
Transcript:
ENSMUST00000028844.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,889,4568,5157,6996
Genomic length:
7098
Exon/intron sizes in nt:
1,03,57,75,82,102
Flanking exon/introns:
chr2:126750100-126754562|chr2:126761660-126762237
Splice length:
419
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATTTTGTGTTGTGGCAAAAACATTAAAGTGAGCCTGATTTTCCTTTCCGGGCTGTGCATCTCAGTTGCTGTTGTGTGGGCTGTATTTCGAAATGAGGATAGGTGGGCTTGGATTTTACAGGATATCTTAGGAATTGCTTTCTGTCTCAACTTAATTAAAACAATGAAGTTACCCAATTTCATGTCATGCGTGATACTGCTAGGCCTTCTTCTCATCTACGATGTGTTCTTTGTCTTCATCACACCTTTCATCACAAAGAATGGTGAGAGCATCATGGTGGAACTTGCTGCTGGGCCTTTCGAGAATGCTGAAAAGTTGCCAGTAGTTATCAGGGTGCCAAAACTGATGGGTTACTCAGTCATGAGTGTATGCTCCGTGCCTGTTTCAGTATTGGGTTTCGGAGATATCATTGTACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGTGTATGCTCCGTGCC
60.18
TACAGCCCACACAACAGCAA
60.11
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGTGTATGCTCCGTGCC
60.18
ATACAGCCCACACAACAGCA
59.89
144
PCR template sequence:
CCAGTAGTTATCAGGGTGCCAAAACTGATGGGTTACTCAGTCATGAGTGTATGCTCCGTGCCTGTTTCAGTATTGGGTTTCGGAGATATCATTGTACCAGGATTTTGTGTTGTGGCAAAAACATTAAAGTGAGCCTGATTTTCCTTTCCGGGCTGTGCATCTCAGTTGCTGTTGTGTGGGCTGTATTTCGAAATGAGGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-377-3p(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCATTGTACCAGGATTTTGTGTTGT
siRNA sets
AACACAAAATCCTGGTACA, CAAAATCCTGGTACAATGA, CAACACAAAATCCTGGTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPPL2A_419_ORF_1
1.0162
-0.004644785
0.496331871
468
ORF sequence:
ATGCTCCGTGCCTGTTTCAGTATTGGGTTTCGGAGATATCATTGTACCAGGATTTTGTGTTGTGGCAAAAACATTAAAGTGAGCCTGATTTTCCTTTCCGGGCTGTGCATCTCAGTTGCTGTTGTGTGGGCTGTATTTCGAAATGAGGATAGGTGGGCTTGGATTTTACAGGATATCTTAGGAATTGCTTTCTGTCTCAACTTAATTAAAACAATGAAGTTACCCAATTTCATGTCATGCGTGATACTGCTAGGCCTTCTTCTCATCTACGATGTGTTCTTTGTCTTCATCACACCTTTCATCACAAAGAATGGTGAGAGCATCATGGTGGAACTTGCTGCTGGGCCTTTCGAGAATGCTGAAAAGTTGCCAGTAGTTATCAGGGTGCCAAAACTGATGGGTTACTCAGTCATGAGTGTATGCTCCGTGCCTGTTTCAGTATTGGGTTTCGGAGATATCATTGTACCA
Peptide sequence:
MLRACFSIGFRRYHCTRILCCGKNIKVSLIFLSGLCISVAVVWAVFRNEDRWAWILQDILGIAFCLNLIKTMKLPNFMSCVILLGLLLIYDVFFVFITPFITKNGESIMVELAAGPFENAEKLPVVIRVPKLMGYSVMSVCSVPVSVLGFGDIIVP
IRESfinder result
IRESfinder score
0.728396065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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