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mmu_circSec31a_96
Basic information of circular RNA
PanCircBase ID:
mmu_circSec31a_96
mm39_Chr. Position ID:
chr5|100551873|100551969|-
Gene name:
Sec31a
Transcript:
ENSMUST00000094578.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
96
Exon/intron sizes in nt:
96
Flanking exon/introns:
chr5:100550214-100551873|chr5:100551969-100553302
Splice length:
96
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCAATTTGGTGGCCTCTGGTGCTAATGAATCTGAAATCTACATTTGGGATCTAAACAATTTTGCAACTCCAATGACGCCGGGAGCTAAAACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCAACTCCAATGACGCC
59.69
TCATTAGCACCAGAGGCCAC
59.75
65
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCAACTCCAATGACGCC
59.69
CATTAGCACCAGAGGCCACC
60.75
64
PCR template sequence:
GATCTAAACAATTTTGCAACTCCAATGACGCCGGGAGCTAAAACACAGACCAATTTGGTGGCCTCTGGTGCTAATGAATCTGAAATCTACATTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGCTAAAACACAGACCAATTTGGTGG
siRNA sets
AATTGGTCTGTGTTTTAGC, AAATTGGTCTGTGTTTTAG, ATTGGTCTGTGTTTTAGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC31A_96_ORF_1
1.1055
0.106119364
0.13102482
120
ORF sequence:
ATGACGCCGGGAGCTAAAACACAGACCAATTTGGTGGCCTCTGGTGCTAATGAATCTGAAATCTACATTTGGGATCTAAACAATTTTGCAACTCCAATGACGCCGGGAGCTAAAACACAG
Peptide sequence:
MTPGAKTQTNLVASGANESEIYIWDLNNFATPMTPGAKTQ
IRESfinder result
IRESfinder score
0.282646062
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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