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mmu_circUbr5_291
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr5_291
mm39_Chr. Position ID:
chr15|38002800|38004197|-
Gene name:
Ubr5
Transcript:
ENSMUST00000110336.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
33,32
Exon/intron offsets:
0,1267
Genomic length:
1397
Exon/intron sizes in nt:
1,61,130
Flanking exon/introns:
chr15:38002700-38002800|chr15:38004197-38004289
Splice length:
291
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223235, circAtlas: mmu-Ubr5_0129
Human Ortholog IDs:
Mature spliced Sequence:
TCTGAGTGCCAGCAGCAGGATAGGCCATCTTTTGCCAGAAGAGCAGGTCTACCTCAACCAGCAGAGCGGCACGATTCGGCTCGACTGTTTCACTCATTGCCTTATTGTCAAGTGTACAGCAGATATTTTGCTTTTAGATACTCTGCTAGGCACCTTAGTAAAAGAACTCCAAAACAAGTACACACCCGGACGCCGGGAAGAAGCAATTGCCGTGACAATGAGGTTTCTACGATCTGTGGCAAGAGTGTTTGTCATTCTTAGTGTGGAAATGGCTTCGTCCAAAAAGAAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAGAAGCAATTGCCGTG
60.11
GGTAGACCTGCTCTTCTGGC
59.82
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAGAAGCAATTGCCGTG
60.11
CGCTCTGCTGGTTGAGGTAG
60.46
165
PCR template sequence:
GCCGGGAAGAAGCAATTGCCGTGACAATGAGGTTTCTACGATCTGTGGCAAGAGTGTTTGTCATTCTTAGTGTGGAAATGGCTTCGTCCAAAAAGAAAAATCTGAGTGCCAGCAGCAGGATAGGCCATCTTTTGCCAGAAGAGCAGGTCTACCTCAACCAGCAGAGCGGCACGATTCGGCTCGACTGTTTCACTCATTGC
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-18a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAAAAAGAAAAATCTGAGTGCCAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR5_291_ORF_1
0.9397
0.15307462
0.434420373
363
ORF sequence:
ATGAGGTTTCTACGATCTGTGGCAAGAGTGTTTGTCATTCTTAGTGTGGAAATGGCTTCGTCCAAAAAGAAAAATCTGAGTGCCAGCAGCAGGATAGGCCATCTTTTGCCAGAAGAGCAGGTCTACCTCAACCAGCAGAGCGGCACGATTCGGCTCGACTGTTTCACTCATTGCCTTATTGTCAAGTGTACAGCAGATATTTTGCTTTTAGATACTCTGCTAGGCACCTTAGTAAAAGAACTCCAAAACAAGTACACACCCGGACGCCGGGAAGAAGCAATTGCCGTGACAATGAGGTTTCTACGATCTGTGGCAAGAGTGTTTGTCATTCTTAGTGTGGAAATGGCTTCGTCCAAAAAGAAA
Peptide sequence:
MRFLRSVARVFVILSVEMASSKKKNLSASSRIGHLLPEEQVYLNQQSGTIRLDCFTHCLIVKCTADILLLDTLLGTLVKELQNKYTPGRREEAIAVTMRFLRSVARVFVILSVEMASSKKK
IRESfinder result
IRESfinder score
0.631192217
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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