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mmu_circSipa1l3_218
Basic information of circular RNA
PanCircBase ID:
mmu_circSipa1l3_218
mm39_Chr. Position ID:
chr7|29023594|29025323|-
Gene name:
Sipa1l3
Transcript:
ENSMUST00000183330.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,12
Exon/intron offsets:
0,1593
Genomic length:
1729
Exon/intron sizes in nt:
82,136
Flanking exon/introns:
chr7:29021712-29023594|chr7:29025323-29028409
Splice length:
218
Other database IDs:
circAtlas: mmu-Sipa1l3_0006
CIRCpedia: HSA_CIRCpedia_25802
Human Ortholog IDs:
Mature spliced Sequence:
TGCAAAGAGCTGTGTCACTCTTCTCTCTGAACGACCCAGCCCTGAGCCCAGAGATCCCTCCTGCACACAGCCCTGTGCACAGCCATCTGAGCCTGGAGCGGGGCCCCCAGACTCCAAGAGCCACTCCCACCATGAGCGAGGAGTCACCCCTGGATCTGACAGGCAAGGTGTACCAGCTGGAGGTGATGCTGAAGCAGCTGCACACGGACCTGCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGTCACCCCTGGATCT
60.03
GTGTGCAGGAGGGATCTCTG
59.82
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGTCACCCCTGGATCT
60.03
CTGTGTGCAGGAGGGATCTC
59.82
151
PCR template sequence:
AGCCACTCCCACCATGAGCGAGGAGTCACCCCTGGATCTGACAGGCAAGGTGTACCAGCTGGAGGTGATGCTGAAGCAGCTGCACACGGACCTGCAGAAGTGCAAAGAGCTGTGTCACTCTTCTCTCTGAACGACCCAGCCCTGAGCCCAGAGATCCCTCCTGCACACAGCCCTGTGCACAGCCATCTGAGCCTGGAGCG
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-296-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCTGCAGAAGTGCAAAGAGCTGT
siRNA sets
CAGCTCTTTGCACTTCTGC,ACAGCTCTTTGCACTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSIPA1L3_218_ORF_1
1.2793
0.510731723
0.514547253
117
ORF sequence:
ATGAGCGAGGAGTCACCCCTGGATCTGACAGGCAAGGTGTACCAGCTGGAGGTGATGCTGAAGCAGCTGCACACGGACCTGCAGAAGTGCAAAGAGCTGTGTCACTCTTCTCTCTGA
Peptide sequence:
MSEESPLDLTGKVYQLEVMLKQLHTDLQKCKELCHSSL
IRESfinder result
IRESfinder score
0.438309754
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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