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mmu_circDnajc13_208
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc13_208
mm39_Chr. Position ID:
chr9|104097069|104098702|-
Gene name:
Dnajc13
Transcript:
ENSMUST00000035170.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,13
Exon/intron offsets:
0,1533
Genomic length:
1633
Exon/intron sizes in nt:
1,08,100
Flanking exon/introns:
chr9:104095881-104097069|chr9:104098702-104105621
Splice length:
208
Other database IDs:
circBase: mmu_circ_0015197
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCGGGAGCGCCTAGGAATGAAGGTAGTGAAAGCACTCAAGAGAAGCAACAACGGAGTCATCCATGCGGCTGTGGATATGCTCTGTGCCCTCATGTGTCCTATGCATGATGACTATGACCTAAGACAAGAGCAGCTAAACAAAGCTTCTCTTCTCTCTTCAAAGAAGTTTCTGGAAAACTTATTGGAGAAATTTAATTCCCATGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCTAAGACAAGAGCAGCT
58.75
ACAGAGCATATCCACAGCCG
59.89
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCTAAGACAAGAGCAGCT
58.75
TGGATGACTCCGTTGTTGCT
59.6
157
PCR template sequence:
TGATGACTATGACCTAAGACAAGAGCAGCTAAACAAAGCTTCTCTTCTCTCTTCAAAGAAGTTTCTGGAAAACTTATTGGAGAAATTTAATTCCCATGTGGTTTCGGGAGCGCCTAGGAATGAAGGTAGTGAAAGCACTCAAGAGAAGCAACAACGGAGTCATCCATGCGGCTGTGGATATGCTCTGTGCCCTCATGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-153-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAATTCCCATGTGGTTTCGGGAGCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC13_208_ORF_1
0.9147
0.063812766
0.244894491
300
ORF sequence:
ATGAAGGTAGTGAAAGCACTCAAGAGAAGCAACAACGGAGTCATCCATGCGGCTGTGGATATGCTCTGTGCCCTCATGTGTCCTATGCATGATGACTATGACCTAAGACAAGAGCAGCTAAACAAAGCTTCTCTTCTCTCTTCAAAGAAGTTTCTGGAAAACTTATTGGAGAAATTTAATTCCCATGTGGTTTCGGGAGCGCCTAGGAATGAAGGTAGTGAAAGCACTCAAGAGAAGCAACAACGGAGTCATCCATGCGGCTGTGGATATGCTCTGTGCCCTCATGTGTCCTATGCATGA
Peptide sequence:
MKVVKALKRSNNGVIHAAVDMLCALMCPMHDDYDLRQEQLNKASLLSSKKFLENLLEKFNSHVVSGAPRNEGSESTQEKQQRSHPCGCGYALCPHVSYA
IRESfinder result
IRESfinder score
0.398341822
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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