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mmu_circDcaf6_234
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf6_234
mm39_Chr. Position ID:
chr1|165179529|165185115|-
Gene name:
Dcaf6
Transcript:
ENSMUST00000027856.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,11
Exon/intron offsets:
0,5468
Genomic length:
5586
Exon/intron sizes in nt:
1,16,118
Flanking exon/introns:
chr1:165179109-165179529|chr1:165185115-165216226
Splice length:
234
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219174, circAtlas: mmu-Dcaf6_0051
circAtlas: hsa-DCAF6_0046, CIRCpedia: HSA_CIRCpedia_140054
Human Ortholog IDs:
Mature spliced Sequence:
ATAACAGTAATGAGAGGCTGAGCCCCAAACCAGGGACAGGTGAACCCGTTTTAAGTTTGCACTACAGCACAGAAGGAACAACTACAAGCACAATAAAACTGAACTTTACAGATGAATGGAGCAGTACAGCCTCAAGTTCCAGAGGAAATGGGAGCCATTGCAAATCTGAGGGTCAGGAAGAATGCTTGGTCCCTCCGAGCTCTGTGCAGCCACCGGAAGGAGACAGTGAAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGAGGAAATGGGAGCCA
60.55
TTCACCTGTCCCTGGTTTGG
59.82
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGAGGAAATGGGAGCCA
60.55
GGTTCACCTGTCCCTGGTTT
59.81
143
PCR template sequence:
AGTTCCAGAGGAAATGGGAGCCATTGCAAATCTGAGGGTCAGGAAGAATGCTTGGTCCCTCCGAGCTCTGTGCAGCCACCGGAAGGAGACAGTGAAACAAATAACAGTAATGAGAGGCTGAGCCCCAAACCAGGGACAGGTGAACCCGTTTTAAGTTTGCACTACAGCACAGAAGGAACAACTACAAGCACAATAAAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-130a-3p(1), mmu-miR-136-5p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACAGTGAAACAAATAACAGTAATGA
siRNA sets
TTACTGTTATTTGTTTCAC,TGTTATTTGTTTCACTGTC,TACTGTTATTTGTTTCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF6_234_ORF_1
0.7913
0.036078218
0.069404265
144
ORF sequence:
ATGAATGGAGCAGTACAGCCTCAAGTTCCAGAGGAAATGGGAGCCATTGCAAATCTGAGGGTCAGGAAGAATGCTTGGTCCCTCCGAGCTCTGTGCAGCCACCGGAAGGAGACAGTGAAACAAATAACAGTAATGAGAGGCTGA
Peptide sequence:
MNGAVQPQVPEEMGAIANLRVRKNAWSLRALCSHRKETVKQITVMRG
IRESfinder result
IRESfinder score
0.556465807
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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