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mmu_circLarp1_207
Basic information of circular RNA
PanCircBase ID:
mmu_circLarp1_207
mm39_Chr. Position ID:
chr11|57933261|57933468|+
Gene name:
Larp1
Transcript:
ENSMUST00000071487.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
207
Exon/intron sizes in nt:
207
Flanking exon/introns:
chr11:57933184-57933261|chr11:57933468-57933569
Splice length:
207
Other database IDs:
circAtlas: mmu-Larp1_0008
circAtlas: hsa-LARP1_0034, CIRCpedia: HSA_CIRCpedia_102156
Human Ortholog IDs:
Mature spliced Sequence:
GATCTGAACCTGCCACCTACATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGAGACATCGAGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAGAGTGATGGGGCTG
59.67
GGCTCCACTTTGGTCTCTGG
60.32
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGAAGAGTGATGGGGCT
59.67
GGCTCCACTTTGGTCTCTGG
60.32
178
PCR template sequence:
AGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGAAGATCTGAACCTGCCACCTACATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGGCACTCGAAGATCTGAACCTGC
siRNA sets
TTCAGATCTTCGAGTGCCA, CAGATCTTCGAGTGCCACC, TCAGATCTTCGAGTGCCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLARP1_207_ORF_1
0.887
0.300474253
0.613302047
393
ORF sequence:
ATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGAGACATCGAGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGAAGATCTGAACCTGCCACCTACATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGAGACATCGAGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGA
Peptide sequence:
MPVSVAPPTPAWQPETKVEPAWHDQDETSSVKSDGAGGARASFRGRGRGRGRGRGRGRGGTRRSEPATYMPVSVAPPTPAWQPETKVEPAWHDQDETSSVKSDGAGGARASFRGRGRGRGRGRGRGRGGTR
IRESfinder result
IRESfinder score
0.478236941
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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