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mmu_circUchl5_489
Basic information of circular RNA
PanCircBase ID:
mmu_circUchl5_489
mm39_Chr. Position ID:
chr1|143659703|143670548|+
Gene name:
Uchl5
Transcript:
ENSMUST00000189936.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,2164,10311,10517,10714
Genomic length:
10845
Exon/intron sizes in nt:
64,10,61,26,62,131
Flanking exon/introns:
chr1:143653214-143659703|chr1:143670548-143672499
Splice length:
489
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTGCCGAGGGGCCCAAGTAGAAGAAATATGGAGCTTAGAACCTGAGAGTTTTGAAAAGCTAAAGCCAGTTCATGGGTTAATTTTTCTTTTCAAGTGGCAGCCAGGAGAAGAACCTGCTGGCTCTGTGGTCCAGGACTCCAGACTTGAAACAATATTTTTTGCCAAGCAGGTAATTAATAATGCTTGTGCCACTCAGGCTATCGTAAGTGTACTACTGAACTGTACGCATCAAGATGTGCATTTAGGAGAGACATTATCAGAATTTAAAGAATTTTCTCAAAGTTTTGATGCAGCTATGAAGGGGCTGGCATTGAGTAACTCAGATGTGATTCGACAAGTGCACAACAGTTTTGCCAGGCAGCAGATGTTTGAATTTGATACAAAGACACCAGCCAAAGAGGAGGATGCTTTTCACTTTGTCAGTTACGTTCCAGTCAATGGGAGGCTGTATGAACTAGACGGGTTAAGAGAGGGCCCAATTGATTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCAAAGAGGAGGATGCT
59.74
ACCCATGAACTGGCTTTAGCT
59.64
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCAAAGAGGAGGATGCT
59.74
ACCCATGAACTGGCTTTAGC
58.16
177
PCR template sequence:
CCAGCCAAAGAGGAGGATGCTTTTCACTTTGTCAGTTACGTTCCAGTCAATGGGAGGCTGTATGAACTAGACGGGTTAAGAGAGGGCCCAATTGATTTAGGTTGCCGAGGGGCCCAAGTAGAAGAAATATGGAGCTTAGAACCTGAGAGTTTTGAAAAGCTAAAGCCAGTTCATGGGTTAATTTTTCTTTTCAAGTGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-296-5p(1), mmu-miR-328-3p(1), mmu-miR-138-5p(1), mmu-miR-22-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CCAATTGATTTAGGTTGCCGAGGGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUCHL5_489_ORF_1
0.9573
0.089714496
0.857586244
681
ORF sequence:
ATGAAGGGGCTGGCATTGAGTAACTCAGATGTGATTCGACAAGTGCACAACAGTTTTGCCAGGCAGCAGATGTTTGAATTTGATACAAAGACACCAGCCAAAGAGGAGGATGCTTTTCACTTTGTCAGTTACGTTCCAGTCAATGGGAGGCTGTATGAACTAGACGGGTTAAGAGAGGGCCCAATTGATTTAGGTTGCCGAGGGGCCCAAGTAGAAGAAATATGGAGCTTAGAACCTGAGAGTTTTGAAAAGCTAAAGCCAGTTCATGGGTTAATTTTTCTTTTCAAGTGGCAGCCAGGAGAAGAACCTGCTGGCTCTGTGGTCCAGGACTCCAGACTTGAAACAATATTTTTTGCCAAGCAGGTAATTAATAATGCTTGTGCCACTCAGGCTATCGTAAGTGTACTACTGAACTGTACGCATCAAGATGTGCATTTAGGAGAGACATTATCAGAATTTAAAGAATTTTCTCAAAGTTTTGATGCAGCTATGAAGGGGCTGGCATTGAGTAACTCAGATGTGATTCGACAAGTGCACAACAGTTTTGCCAGGCAGCAGATGTTTGAATTTGATACAAAGACACCAGCCAAAGAGGAGGATGCTTTTCACTTTGTCAGTTACGTTCCAGTCAATGGGAGGCTGTATGAACTAGACGGGTTAAGAGAGGGCCCAATTGATTTA
Peptide sequence:
MKGLALSNSDVIRQVHNSFARQQMFEFDTKTPAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGCRGAQVEEIWSLEPESFEKLKPVHGLIFLFKWQPGEEPAGSVVQDSRLETIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDVIRQVHNSFARQQMFEFDTKTPAKEEDAFHFVSYVPVNGRLYELDGLREGPIDL
IRESfinder result
IRESfinder score
0.743457259
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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