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mmu_circGigyf2_180
Basic information of circular RNA
PanCircBase ID:
mmu_circGigyf2_180
mm39_Chr. Position ID:
chr1|87331388|87331568|+
Gene name:
Gigyf2
Transcript:
ENSMUST00000027475.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
180
Exon/intron sizes in nt:
180
Flanking exon/introns:
chr1:87307730-87331388|chr1:87331568-87334705
Splice length:
180
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAGACCAAATTTTGAGGAAAGTGGACCAACGTCTGTGGGGAGAAAGCATGAATTTATACGGTCAGAAAGTGAAAACTGGCGAATCTTTAGAGAGGAACAGAATGGAGAAGATGAAGATGGAGGTTGGCGGTTAGCTGGATCAAGAAGGGATGGAGAGAGATGGCGGCCTCACAGTCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAGATGGAGGTTGGCGG
60.11
TCATGCTTTCTCCCCACAGAC
60
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGAAGATGGAGGTTGGCG
60.13
ATGCTTTCTCCCCACAGACG
60.04
121
PCR template sequence:
GAGAGGAACAGAATGGAGAAGATGAAGATGGAGGTTGGCGGTTAGCTGGATCAAGAAGGGATGGAGAGAGATGGCGGCCTCACAGTCCTGGGAGACCAAATTTTGAGGAAAGTGGACCAACGTCTGTGGGGAGAAAGCATGAATTTATACGGTCAGAAAGTGAAAACTGGCGAATCTTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CCTCACAGTCCTGGGAGACCAAATTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGIGYF2_180_ORF_1
0.9588
0.137738012
0.152559246
165
ORF sequence:
ATGGAGAGAGATGGCGGCCTCACAGTCCTGGGAGACCAAATTTTGAGGAAAGTGGACCAACGTCTGTGGGGAGAAAGCATGAATTTATACGGTCAGAAAGTGAAAACTGGCGAATCTTTAGAGAGGAACAGAATGGAGAAGATGAAGATGGAGGTTGGCGGTTAG
Peptide sequence:
MERDGGLTVLGDQILRKVDQRLWGESMNLYGQKVKTGESLERNRMEKMKMEVGG
IRESfinder result
IRESfinder score
0.275564901
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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