top of page
mmu_circDesi2_309
Basic information of circular RNA
PanCircBase ID:
mmu_circDesi2_309
mm39_Chr. Position ID:
chr1|178065477|178072048|+
Gene name:
Desi2
Transcript:
ENSMUST00000161075.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,4700,6429
Genomic length:
6571
Exon/intron sizes in nt:
73,94,142
Flanking exon/introns:
chr1:178025856-178065477|chr1:178072048-178076800
Splice length:
309
Other database IDs:
circAtlas: mmu-Desi2_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_30972
Human Ortholog IDs:
Mature spliced Sequence:
TACTGGATGAATGAATACACCTCATCTATTGGAATTGGAGTTTTTCATTCTGGAATTGAAGTATATGGCAGAGAGTTTGCTTATGGTGGCCATCCATATCCTTTTTCTGGAATATTTGAAATTTCCCCAGGAAATGCTTCTGAGCTAGGAGAAACATTTAAATTTAAAGAAGCTGTTGTTCTAGGAAGTACGGACTTTCTAGAAGATGATATAGAGAAAATTGTAGAAGAACTGGGGAAAGAGTATAAGGGCAACGCCTACCATCTGATGCACAAAAACTGCAATCACTTTTCTTCAGCTTTATCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAACGCCTACCATCTGAT
60.18
TGGATGGCCACCATAAGCAA
59.67
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGCCTACCATCTGATGCAC
60.18
TGGATGGCCACCATAAGCAA
59.67
152
PCR template sequence:
TATAGAGAAAATTGTAGAAGAACTGGGGAAAGAGTATAAGGGCAACGCCTACCATCTGATGCACAAAAACTGCAATCACTTTTCTTCAGCTTTATCAGAGTACTGGATGAATGAATACACCTCATCTATTGGAATTGGAGTTTTTCATTCTGGAATTGAAGTATATGGCAGAGAGTTTGCTTATGGTGGCCATCCATATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-320-3p(1), mmu-miR-26b-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTTTATCAGAGTACTGGATGAATG
siRNA sets
ATTCATCCAGTACTCTGAT, CATTCATCCAGTACTCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDESI2_309_ORF_1
0.9607
0.029617726
0.743928168
612
ORF sequence:
ATGAATGAATACACCTCATCTATTGGAATTGGAGTTTTTCATTCTGGAATTGAAGTATATGGCAGAGAGTTTGCTTATGGTGGCCATCCATATCCTTTTTCTGGAATATTTGAAATTTCCCCAGGAAATGCTTCTGAGCTAGGAGAAACATTTAAATTTAAAGAAGCTGTTGTTCTAGGAAGTACGGACTTTCTAGAAGATGATATAGAGAAAATTGTAGAAGAACTGGGGAAAGAGTATAAGGGCAACGCCTACCATCTGATGCACAAAAACTGCAATCACTTTTCTTCAGCTTTATCAGAGTACTGGATGAATGAATACACCTCATCTATTGGAATTGGAGTTTTTCATTCTGGAATTGAAGTATATGGCAGAGAGTTTGCTTATGGTGGCCATCCATATCCTTTTTCTGGAATATTTGAAATTTCCCCAGGAAATGCTTCTGAGCTAGGAGAAACATTTAAATTTAAAGAAGCTGTTGTTCTAGGAAGTACGGACTTTCTAGAAGATGATATAGAGAAAATTGTAGAAGAACTGGGGAAAGAGTATAAGGGCAACGCCTACCATCTGATGCACAAAAACTGCAATCACTTTTCTTCAGCTTTATCAGAG
Peptide sequence:
MNEYTSSIGIGVFHSGIEVYGREFAYGGHPYPFSGIFEISPGNASELGETFKFKEAVVLGSTDFLEDDIEKIVEELGKEYKGNAYHLMHKNCNHFSSALSEYWMNEYTSSIGIGVFHSGIEVYGREFAYGGHPYPFSGIFEISPGNASELGETFKFKEAVVLGSTDFLEDDIEKIVEELGKEYKGNAYHLMHKNCNHFSSALSE
IRESfinder result
IRESfinder score
0.693504356
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page