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mmu_circDap3_159
Basic information of circular RNA
PanCircBase ID:
mmu_circDap3_159
mm39_Chr. Position ID:
chr3|88843455|88850135|-
Gene name:
Dap3
Transcript:
ENSMUST00000090938.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,6626
Genomic length:
6680
Exon/intron sizes in nt:
105,54
Flanking exon/introns:
chr3:88840973-88843455|chr3:88850135-88857174
Splice length:
159
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213210, circAtlas: mmu-Dap3_0004
Human Ortholog IDs:
Mature spliced Sequence:
AGAGCAAAGACCATGCTGACAGGAATAACAAGGCTTTTCTCCAGGGTCCAGAAGTTGGACCCGAGGTGTTTTTTGCACATGAGTGTTCAAGCGACTCAGAACAGTCAGGTTCCAGCTGAGCGTCCCAGAACTGTTTCCCGCACCAGTGACAGTGACCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGACTCAGAACAGTCAGGT
59.68
AACACCTCGGGTCCAACTTC
59.89
139
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGACTCAGAACAGTCAGGT
59.68
CACCTCGGGTCCAACTTCTG
60.32
137
PCR template sequence:
GAGTGTTCAAGCGACTCAGAACAGTCAGGTTCCAGCTGAGCGTCCCAGAACTGTTTCCCGCACCAGTGACAGTGACCCGAGAGCAAAGACCATGCTGACAGGAATAACAAGGCTTTTCTCCAGGGTCCAGAAGTTGGACCCGAGGTGTTTTTTGCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TGACAGTGACCCGAGAGCAAAGACCA
siRNA sets
TGGTCTTTGCTCTCGGGTC, TCTTTGCTCTCGGGTCACT, TTGCTCTCGGGTCACTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDAP3_159_ORF_1
1.003
-0.000629067
0.23510634
306
ORF sequence:
ATGCTGACAGGAATAACAAGGCTTTTCTCCAGGGTCCAGAAGTTGGACCCGAGGTGTTTTTTGCACATGAGTGTTCAAGCGACTCAGAACAGTCAGGTTCCAGCTGAGCGTCCCAGAACTGTTTCCCGCACCAGTGACAGTGACCCGAGAGCAAAGACCATGCTGACAGGAATAACAAGGCTTTTCTCCAGGGTCCAGAAGTTGGACCCGAGGTGTTTTTTGCACATGAGTGTTCAAGCGACTCAGAACAGTCAGGTTCCAGCTGAGCGTCCCAGAACTGTTTCCCGCACCAGTGACAGTGACCCG
Peptide sequence:
MLTGITRLFSRVQKLDPRCFLHMSVQATQNSQVPAERPRTVSRTSDSDPRAKTMLTGITRLFSRVQKLDPRCFLHMSVQATQNSQVPAERPRTVSRTSDSDP
IRESfinder result
IRESfinder score
0.650199729
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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