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mmu_circDnajc1_164
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc1_164
mm39_Chr. Position ID:
chr2|18289433|18289597|-
Gene name:
Dnajc1
Transcript:
ENSMUST00000091418.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
164
Exon/intron sizes in nt:
164
Flanking exon/introns:
chr2:18236634-18289433|chr2:18289597-18298764
Splice length:
164
Other database IDs:
circAtlas: mmu-Dnajc1_0019
Human Ortholog IDs:
Mature spliced Sequence:
AACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAGAAAATACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCAAATGGATGACTGGC
59.26
CGTATTTTCTAAAGGCATATACACAGG
58.5
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCAAATGGATGACTGGC
59.26
ACGTATTTTCTAAAGGCATATACACA
57.05
121
PCR template sequence:
TGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAGAACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAGAAAATACGTATATTCAGTCTTA
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
ACAGAAAAGACAGAACAGAAGAAAGT
siRNA sets
ACTTTCTTCTGTTCTGTCT, TTTCTTCTGTTCTGTCTTT, CTTCTGTTCTGTCTTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC1_164_ORF_1
0.7781
-0.080017289
0.053387068
174
ORF sequence:
ATGCCTTTAGAAAATACGTATATTCAGTCTTATGATCATGGAACTTCTATTGAAGAAATTGAGGAGCAAATGGATGACTGGCTGGAAAACAGGAAAAGAACACAGAAAAGACAGAACAGAAGAAAGTTAAAGTTAAAAAACCAAAACCAGAATTTCCTGTGTATATGCCTTTAG
Peptide sequence:
MPLENTYIQSYDHGTSIEEIEEQMDDWLENRKRTQKRQNRRKLKLKNQNQNFLCICL
IRESfinder result
IRESfinder score
0.538724603
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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