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mmu_circSuco_293
Basic information of circular RNA
PanCircBase ID:
mmu_circSuco_293
mm39_Chr. Position ID:
chr1|161684912|161687073|-
Gene name:
Suco
Transcript:
ENSMUST00000048377.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2006
Genomic length:
2161
Exon/intron sizes in nt:
1,38,155
Flanking exon/introns:
chr1:161684540-161684912|chr1:161687073-161689760
Splice length:
293
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229215
Human Ortholog IDs:
Mature spliced Sequence:
GATTTGGAAACAACGAAGTTAAGCCTCCCTGTGGTTGAAGCACTCCCTACAGTTGATTTGCATGAAGAGTCTTCCAGTGTAGTTGTAGGCAGTGAAACCATTGAAAATAGTTCCAGTTCATCTACCTCAGAAAGGACTCCAGTCTCAGAGCTTGATGAAGTAGAAAAGTCTGGTACTTTATCTATAGCCAAGCCAGGTGAAGTGGAGCAGCCTGAAGCTGACTGTGATGCTGGGGAGGCTCCTGATGCAGATGCTCCAGTGGAACAACCTGCTTTTGTCAGTCCACCAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGTGGAGCAGCCTGAAG
59.96
GAGTGCTTCAACCACAGGGA
59.89
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGTGGAGCAGCCTGAAG
59.96
AGTGCTTCAACCACAGGGAG
59.89
140
PCR template sequence:
CAGGTGAAGTGGAGCAGCCTGAAGCTGACTGTGATGCTGGGGAGGCTCCTGATGCAGATGCTCCAGTGGAACAACCTGCTTTTGTCAGTCCACCAGAGAGGATTTGGAAACAACGAAGTTAAGCCTCCCTGTGGTTGAAGCACTCCCTACAGTTGATTTGCATGAAGAGTCTTCCAGTGTAGTTGTAGGCAGTGAAACCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCACCAGAGAGGATTTGGAAACAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUCO_293_ORF_1
1.1768
0.001901659
0.090885171
105
ORF sequence:
ATGCTGGGGAGGCTCCTGATGCAGATGCTCCAGTGGAACAACCTGCTTTTGTCAGTCCACCAGAGAGGATTTGGAAACAACGAAGTTAAGCCTCCCTGTGGTTGA
Peptide sequence:
MLGRLLMQMLQWNNLLLSVHQRGFGNNEVKPPCG
IRESfinder result
IRESfinder score
0.713181883
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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