top of page
mmu_circUbe2o_878
Basic information of circular RNA
PanCircBase ID:
mmu_circUbe2o_878
mm39_Chr. Position ID:
chr11|116435173|116436803|-
Gene name:
Ube2o
Transcript:
ENSMUST00000082152.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,8,7,6
Exon/intron offsets:
0,698,977,1486
Genomic length:
1630
Exon/intron sizes in nt:
4,73,15,11,10,144
Flanking exon/introns:
chr11:116434846-116435173|chr11:116436803-116437286
Splice length:
878
Other database IDs:
circAtlas: hsa-UBE2O_0028, CIRCpedia: HSA_CIRCpedia_167495
Human Ortholog IDs:
Mature spliced Sequence:
GGTCTCTTCTTTGATGACTCTTATGGCTTCTACCCAGGCCAAGTCCTTATTGGCCCAGCCAAGATCTTCTCCAGTGTCCAGTGGCTCTCTGGGGTCAAGCCTGTACTCAGCACCAAGAGCAAGTTCCGTGTGGTGGTGGAGGAGGTGCAGGTTGTAGAACTGAAAGTCACGTGGATTACCAAGAGCTTCTGCCCCGGCGGCACGGACAGCGTTAGCCCCCCACCTTCCATCATCACTCAGGAAAACCTAGGCAGGGTGAAGCGTCTCGGATGCTTTGACCATGCTCAGCGGCAGCTTGGGGAACGCTGTCTGTATGTCTTCCCAGCCAAGGTAGAGCCGGCCAAGATTGCCTGGGAATGTCCAGAAAAAAACTGCGCCCAGGGGGAGGGCTCTATGGCCAAGAAGGTGAAGCGTCTGTTGAAGAAGCAAGTTGTGAGAATCATGTCCTGCACCCCAGATACCCAGTGTCCTAGGGACCATTCCATGGAAGACCCAGACAAGAAAGGGGAAGCCAGAGCCGGGAGTGAAATAGGGTCTGCTAGCCCGGAGGAGCAACCTGATGGATCAGCCAGCCCCGTGGAGATGCAGGATGAGGGGTCGGAGGAGCTTCAGGAGACATGCGAGCCACTGCCCCCCTTCCTCTTGAAGGAGGGTGGAGATGACGGGCTGCACTCGGCAGAGCAGGACGCAGATGATGAGGCGGCTGACGATACAGATGACACCAGCTCTGTGACCTCCTCCGCCAGCTCTACTACCTCCTCCCAGAGTGGCAGTGGCACTGGTCGTAAAAAGAGCATTCCCTTGTCCATCAAAAACTTGAAGCGAAAACACAAGAGGAAGAAGAATAAGGTCACCCGTGACTTCAAGCCTGGAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCATTCCCTTGTCCATCA
59.08
CAGAGAGCCACTGGACACTG
60.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCATTCCCTTGTCCATCA
59.08
GCCACTGGACACTGGAGAAG
60.32
173
PCR template sequence:
CTGGTCGTAAAAAGAGCATTCCCTTGTCCATCAAAAACTTGAAGCGAAAACACAAGAGGAAGAAGAATAAGGTCACCCGTGACTTCAAGCCTGGAGACAGGGTCTCTTCTTTGATGACTCTTATGGCTTCTACCCAGGCCAAGTCCTTATTGGCCCAGCCAAGATCTTCTCCAGTGTCCAGTGGCTCTCTGGGGTCAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-676-3p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-342-5p(1), mmu-miR-224-5p(1), mmu-miR-98-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCTGGAGACAGGGTCTCTTCTTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBE2O_878_ORF_1
0.8568
0.282533533
0.890631692
642
ORF sequence:
ATGGCCAAGAAGGTGAAGCGTCTGTTGAAGAAGCAAGTTGTGAGAATCATGTCCTGCACCCCAGATACCCAGTGTCCTAGGGACCATTCCATGGAAGACCCAGACAAGAAAGGGGAAGCCAGAGCCGGGAGTGAAATAGGGTCTGCTAGCCCGGAGGAGCAACCTGATGGATCAGCCAGCCCCGTGGAGATGCAGGATGAGGGGTCGGAGGAGCTTCAGGAGACATGCGAGCCACTGCCCCCCTTCCTCTTGAAGGAGGGTGGAGATGACGGGCTGCACTCGGCAGAGCAGGACGCAGATGATGAGGCGGCTGACGATACAGATGACACCAGCTCTGTGACCTCCTCCGCCAGCTCTACTACCTCCTCCCAGAGTGGCAGTGGCACTGGTCGTAAAAAGAGCATTCCCTTGTCCATCAAAAACTTGAAGCGAAAACACAAGAGGAAGAAGAATAAGGTCACCCGTGACTTCAAGCCTGGAGACAGGGTCTCTTCTTTGATGACTCTTATGGCTTCTACCCAGGCCAAGTCCTTATTGGCCCAGCCAAGATCTTCTCCAGTGTCCAGTGGCTCTCTGGGGTCAAGCCTGTACTCAGCACCAAGAGCAAGTTCCGTGTGGTGGTGGAGGAGGTGCAGGTTGTAG
Peptide sequence:
MAKKVKRLLKKQVVRIMSCTPDTQCPRDHSMEDPDKKGEARAGSEIGSASPEEQPDGSASPVEMQDEGSEELQETCEPLPPFLLKEGGDDGLHSAEQDADDEAADDTDDTSSVTSSASSTTSSQSGSGTGRKKSIPLSIKNLKRKHKRKKNKVTRDFKPGDRVSSLMTLMASTQAKSLLAQPRSSPVSSGSLGSSLYSAPRASSVWWWRRCRL
IRESfinder result
IRESfinder score
0.299797883
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page