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mmu_circUso1_230
Basic information of circular RNA
PanCircBase ID:
mmu_circUso1_230
mm39_Chr. Position ID:
chr5|92325293|92328489|+
Gene name:
Uso1
Transcript:
ENSMUST00000031355.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,3107
Genomic length:
3196
Exon/intron sizes in nt:
141,89
Flanking exon/introns:
chr5:92321963-92325293|chr5:92328489-92329198
Splice length:
230
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTGTGCGGGTACTGGTATCTCCCACCAACCCTCCCGGTGCTACCAGTAGCTGCCAGAAGGCCATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTATCCTGATGGCTACTGGGATTCCTGCTGATATCCTGACAGAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTATCCGAGGCTGCCAAGT
60.11
GGAGTAGCCCACACTGGAAC
60.04
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTATCCGAGGCTGCCAAGT
60.11
ACTGGAACATGGCCTTCTGG
59.96
141
PCR template sequence:
TCCTGACAGAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGCTTGTGCGGGTACTGGTATCTCCCACCAACCCTCCCGGTGCTACCAGTAGCTGCCAGAAGGCCATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTA
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-18a-5p(1), mmu-miR-320-3p(1), mmu-miR-382-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAATCCCCCACGCTTGTGCGGGTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSO1_230_ORF_1
0.494
0.056751274
0.105915396
273
ORF sequence:
ATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTATCCTGATGGCTACTGGGATTCCTGCTGATATCCTGACAGAGACCATAAATACTGTATCAGAGGTTATCCGAGGCTGCCAAGTAAACCAAGACTACTTTGCTTCTGTGAATGCACCTTCAAATCCCCCACGCTTGTGCGGGTACTGGTATCTCCCACCAACCCTCCCGGTGCTACCAGTAGCTGCCAGAAGGCCATGTTCCAGTGTGGGCTACTCCAGCAGCTTTGCACTATCCTGA
Peptide sequence:
MFQCGLLQQLCTILMATGIPADILTETINTVSEVIRGCQVNQDYFASVNAPSNPPRLCGYWYLPPTLPVLPVAARRPCSSVGYSSSFALS
IRESfinder result
IRESfinder score
0.580221244
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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