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mmu_circEif3k_295
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3k_295
mm39_Chr. Position ID:
chr7|28676625|28679967|-
Gene name:
Eif3k
Transcript:
ENSMUST00000066070.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,669,3243
Genomic length:
3342
Exon/intron sizes in nt:
75,121,99
Flanking exon/introns:
chr7:28674094-28676625|chr7:28679967-28681098
Splice length:
295
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15337, circAtlas: mmu-Eif3k_0002
circBase: hsa_circ_0050882
Human Ortholog IDs:
Mature spliced Sequence:
GTACAATCCTGAGAACTTGGCTACCCTGGAGCGATATGTGGAGACACAAGCCAAAGAGAATGCCTATGATCTGGAGGCCAACCTGGCCGTCCTGAAACTGTACCAGTTCAACCCAGCCTTCTTCCAGACCACAGTCACTGCCCAGATTCTGCTGAAAGCCCTCACCAACCTGCCCCACACCGACTTCACTCTGTGTAAATGTATGATCGACCAGGCACATCAAGAAGAGCGGCCCATCCGGCAGATCTTGTACCTCGGGGACCTGCTGGAGACCTGCCACTTTCAAGCCTTCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGATCTTGTACCTCGGGG
59.89
CAGGTTGGCCTCCAGATCAT
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGATCTTGTACCTCGGG
59.89
CAGGTTGGCCTCCAGATCAT
59.45
141
PCR template sequence:
TAAATGTATGATCGACCAGGCACATCAAGAAGAGCGGCCCATCCGGCAGATCTTGTACCTCGGGGACCTGCTGGAGACCTGCCACTTTCAAGCCTTCTGGGTACAATCCTGAGAACTTGGCTACCCTGGAGCGATATGTGGAGACACAAGCCAAAGAGAATGCCTATGATCTGGAGGCCAACCTGGCCGTCCTGAAACTG
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-134-5p(1), mmu-miR-34a-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAGCCTTCTGGGTACAATCCTGAG
siRNA sets
AGGATTGTACCCAGAAGGC,CAGGATTGTACCCAGAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3K_295_ORF_1
0.9228
-0.07696829
0.077989669
192
ORF sequence:
ATGTATGATCGACCAGGCACATCAAGAAGAGCGGCCCATCCGGCAGATCTTGTACCTCGGGGACCTGCTGGAGACCTGCCACTTTCAAGCCTTCTGGGTACAATCCTGAGAACTTGGCTACCCTGGAGCGATATGTGGAGACACAAGCCAAAGAGAATGCCTATGATCTGGAGGCCAACCTGGCCGTCCTGA
Peptide sequence:
MYDRPGTSRRAAHPADLVPRGPAGDLPLSSLLGTILRTWLPWSDMWRHKPKRMPMIWRPTWPS
IRESfinder result
IRESfinder score
0.548451373
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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