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mmu_circ4933402J15Rik_263
Basic information of circular RNA
PanCircBase ID:
mmu_circ4933402J15Rik_263
mm39_Chr. Position ID:
chr14|74601856|74603637|+
Gene name:
4933402J15Rik
Transcript:
ENSMUST00000226927.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,1575
Genomic length:
1781
Exon/intron sizes in nt:
57,206
Flanking exon/introns:
chr14:74593186-74601856|chr14:74603637-74605213
Splice length:
263
Other database IDs:
circAtlas: mmu-intergenic_012936
Human Ortholog IDs:
Mature spliced Sequence:
AGCATTTTATCACGGCAACAGGAATGAAGCTAGGACAGAGTCCAGGATTGTTGATAGGATCTTTTCTGGGTCACATGCTCTGGGACTGGCTGAGCTGAATGCCCTACACAGGCTTTGGGACTGCAGACCTGGTGAACTGAGATGATCTACTCTGTCCTATCAAAGGAAGAAAAGAGGGAACTCCACAGAGAAGGGCTCAAAGACATATGAGACCATACCACATCCAGGAATAGAAAAAGGCACATGGTCCATGGGAATGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACTCCACAGAGAAGGGC
60.04
CCAGAGCATGTGACCCAGAA
59.67
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACTCCACAGAGAAGGGC
60.04
CAGTCCCAGAGCATGTGACC
60.39
175
PCR template sequence:
AGGAAGAAAAGAGGGAACTCCACAGAGAAGGGCTCAAAGACATATGAGACCATACCACATCCAGGAATAGAAAAAGGCACATGGTCCATGGGAATGTGAGAGCATTTTATCACGGCAACAGGAATGAAGCTAGGACAGAGTCCAGGATTGTTGATAGGATCTTTTCTGGGTCACATGCTCTGGGACTGGCTGAGCTGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-211-5p(1), mmu-miR-23a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGGAATGTGAGAGCATTTTATCAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4933402J15RIK_263_ORF_1
0.7998
-0.08069079
0.051794252
165
ORF sequence:
ATGGTCCATGGGAATGTGAGAGCATTTTATCACGGCAACAGGAATGAAGCTAGGACAGAGTCCAGGATTGTTGATAGGATCTTTTCTGGGTCACATGCTCTGGGACTGGCTGAGCTGAATGCCCTACACAGGCTTTGGGACTGCAGACCTGGTGAACTGAGATGA
Peptide sequence:
MVHGNVRAFYHGNRNEARTESRIVDRIFSGSHALGLAELNALHRLWDCRPGELR
IRESfinder result
IRESfinder score
0.457568182
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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