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mmu_circDnm3_336
Basic information of circular RNA
PanCircBase ID:
mmu_circDnm3_336
mm39_Chr. Position ID:
chr1|161911601|162059336|-
Gene name:
Dnm3
Transcript:
ENSMUST00000159763.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,50424,147621
Genomic length:
147735
Exon/intron sizes in nt:
11,21,10,114
Flanking exon/introns:
chr1:161847561-161911601|chr1:162059336-162113565
Splice length:
336
Other database IDs:
circAtlas: mmu-Dnm3_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_140081
Human Ortholog IDs:
Mature spliced Sequence:
GTGATTCGTAAGGGCTGGCTGACCGTCAGCAACATTGGCATCATGAAAGGGGGCTCGAAGGGCTACTGGTTTGTCCTCACTGCAGAAAGCCTGTCCTGGTATAAAGACGATGAGGAGAAAGAAAAGAAATATATGCTTCCCCTGGACAACCTGAAGGTCCGGGATGTGGAGAAGGGCTTCATGTCCAGCAAGCACGTCTTCGCACTCTTCAACACCGAGCAAAGGAATGTATACAAAGACTATCGCTTCCTGGAGCTGGCCTGTGATTCCCAGGAAGATGTGGACAGCTGGAAGGCGTCTCTGCTCAGAGCCGGGGTCTACCCAGATAAATCTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTATCGCTTCCTGGAGCTGG
59.97
AAACCAGTAGCCCTTCGAGC
60.04
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTATCGCTTCCTGGAGCTGG
59.97
TCGAGCCCCCTTTCATGATG
59.82
155
PCR template sequence:
AGACTATCGCTTCCTGGAGCTGGCCTGTGATTCCCAGGAAGATGTGGACAGCTGGAAGGCGTCTCTGCTCAGAGCCGGGGTCTACCCAGATAAATCTGTAGTGATTCGTAAGGGCTGGCTGACCGTCAGCAACATTGGCATCATGAAAGGGGGCTCGAAGGGCTACTGGTTTGTCCTCACTGCAGAAAGCCTGTCCTGGT
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-697(1)
siRNAs for circular RNA silencing
Junction sequence
AGATAAATCTGTAGTGATTCGTAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNM3_336_ORF_1
1.2542
0.45030831
0.969555962
630
ORF sequence:
ATGAAAGGGGGCTCGAAGGGCTACTGGTTTGTCCTCACTGCAGAAAGCCTGTCCTGGTATAAAGACGATGAGGAGAAAGAAAAGAAATATATGCTTCCCCTGGACAACCTGAAGGTCCGGGATGTGGAGAAGGGCTTCATGTCCAGCAAGCACGTCTTCGCACTCTTCAACACCGAGCAAAGGAATGTATACAAAGACTATCGCTTCCTGGAGCTGGCCTGTGATTCCCAGGAAGATGTGGACAGCTGGAAGGCGTCTCTGCTCAGAGCCGGGGTCTACCCAGATAAATCTGTAGTGATTCGTAAGGGCTGGCTGACCGTCAGCAACATTGGCATCATGAAAGGGGGCTCGAAGGGCTACTGGTTTGTCCTCACTGCAGAAAGCCTGTCCTGGTATAAAGACGATGAGGAGAAAGAAAAGAAATATATGCTTCCCCTGGACAACCTGAAGGTCCGGGATGTGGAGAAGGGCTTCATGTCCAGCAAGCACGTCTTCGCACTCTTCAACACCGAGCAAAGGAATGTATACAAAGACTATCGCTTCCTGGAGCTGGCCTGTGATTCCCAGGAAGATGTGGACAGCTGGAAGGCGTCTCTGCTCAGAGCCGGGGTCTACCCAGATAAATCTGTA
Peptide sequence:
MKGGSKGYWFVLTAESLSWYKDDEEKEKKYMLPLDNLKVRDVEKGFMSSKHVFALFNTEQRNVYKDYRFLELACDSQEDVDSWKASLLRAGVYPDKSVVIRKGWLTVSNIGIMKGGSKGYWFVLTAESLSWYKDDEEKEKKYMLPLDNLKVRDVEKGFMSSKHVFALFNTEQRNVYKDYRFLELACDSQEDVDSWKASLLRAGVYPDKSV
IRESfinder result
IRESfinder score
0.42985217
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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