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mmu_circEpb41l4a_324
Basic information of circular RNA
PanCircBase ID:
mmu_circEpb41l4a_324
mm39_Chr. Position ID:
chr18|33957511|33961863|-
Gene name:
Epb41l4a
Transcript:
ENSMUST00000025234.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
18,17,16,15
Exon/intron offsets:
0,948,3645,4268
Genomic length:
4352
Exon/intron sizes in nt:
78,48,114,84
Flanking exon/introns:
chr18:33943391-33957511|chr18:33961863-33965647
Splice length:
324
Other database IDs:
circAtlas: mmu-Epb4_0115
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_180003
Human Ortholog IDs:
Mature spliced Sequence:
TTTTAAGAAAGCAAAGAATGAAAACAGCCCTGACCCCCAAAGAAGCAAATCTCATGCACCTTGGGAAGAAAACGGACCGCAGAGCGGACTATACAACTCCTCCAGTGACCGCACTAAGTCACCAAAGTTTCCCTGTGCCCGGCAGCGCAACCTCTCCTGCGGCAGTGACAATGACTCCTCGCAACTGATGAGGCGAAGGAAAGCTCACAACAGTGGCGAAGACTCAGATCTCAAGCAGAGGAGGAGGTCACGCTCACGCTGTAACACAAGCAGTGGTAGTGAGTCAGAAAATTCTAACAGAGAACACCGGAAAAAGAGAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAGCAGAGGAGGAGGTCA
59.88
TTGCTTCTTTGGGGGTCAGG
60.18
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCACGCTGTAACACAAGC
60.11
CCGTTTTCTTCCCAAGGTGC
59.69
148
PCR template sequence:
CAGATCTCAAGCAGAGGAGGAGGTCACGCTCACGCTGTAACACAAGCAGTGGTAGTGAGTCAGAAAATTCTAACAGAGAACACCGGAAAAAGAGAAACAGTTTTAAGAAAGCAAAGAATGAAAACAGCCCTGACCCCCAAAGAAGCAAATCTCATGCACCTTGGGAAGAAAACGGACCGCAGAGCGGACTATACAACTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-18a-5p(1), mmu-miR-324-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAGAGAAACAGTTTTAAGAAAGCA
siRNA sets
TTTCTTAAAACTGTTTCTC, TTCTTAAAACTGTTTCTCT, CTTTCTTAAAACTGTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEPB41L4A_324_ORF_1
1.0571
0.210528001
0.706950405
459
ORF sequence:
ATGAGGCGAAGGAAAGCTCACAACAGTGGCGAAGACTCAGATCTCAAGCAGAGGAGGAGGTCACGCTCACGCTGTAACACAAGCAGTGGTAGTGAGTCAGAAAATTCTAACAGAGAACACCGGAAAAAGAGAAACAGTTTTAAGAAAGCAAAGAATGAAAACAGCCCTGACCCCCAAAGAAGCAAATCTCATGCACCTTGGGAAGAAAACGGACCGCAGAGCGGACTATACAACTCCTCCAGTGACCGCACTAAGTCACCAAAGTTTCCCTGTGCCCGGCAGCGCAACCTCTCCTGCGGCAGTGACAATGACTCCTCGCAACTGATGAGGCGAAGGAAAGCTCACAACAGTGGCGAAGACTCAGATCTCAAGCAGAGGAGGAGGTCACGCTCACGCTGTAACACAAGCAGTGGTAGTGAGTCAGAAAATTCTAACAGAGAACACCGGAAAAAGAGAAAC
Peptide sequence:
MRRRKAHNSGEDSDLKQRRRSRSRCNTSSGSESENSNREHRKKRNSFKKAKNENSPDPQRSKSHAPWEENGPQSGLYNSSSDRTKSPKFPCARQRNLSCGSDNDSSQLMRRRKAHNSGEDSDLKQRRRSRSRCNTSSGSESENSNREHRKKRN
IRESfinder result
IRESfinder score
0.252722564
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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