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mmu_ciUsp47_973
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp47_973
mm39_Chr. Position ID:
chr7|111662598|111663571|+
Gene name:
Usp47
Transcript:
ENSMUST00000106653.4
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
973
Exon/intron sizes in nt:
973
Flanking exon/introns:
chr7:111662598-111663571
Splice length:
973
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATAATTCTTTTAATGATAACGACTTCTAGTGTTCAGAGATTTCTGGATTACAGTGTCACACCTATTATTATCTTTACCTGAAACATCTTGCTTTTTATTTGGATGTTAAAGTAATTTATTTTTAATTACTTAATATCTGAGAGATAAATTTTAACAATTAAGATTCTCTTACAATTGAATTTGATATGTTCTATTTTTAATGAGTTTAAACTTTTTTATAGTTTTTTTTCAAACATATTTTTTACATAATAAAGATACTGGGAAAAAAACTTTATTAAAAAGGAGCAATCTTTTTAACTTTGTAACTTTAAAAAATATTATTTCTTTTTTTAATTGTTTTTTGAGATTATAGTGTAATTATATCATTTCTCTGTCTTCTTTCTTCCCTCCAAACCCTCTTATATTCTTCTCCTTGCTCTCTTTAAAATTCGTGCCCTCTTTTCTTAGCTGTGTAGTAGTGGCACACATCTTTAATCCCAGTACTAAGAAGGCAGAGAGAGGTGGATCTCTGTGATTTTGAGACCAGCCTGGTCTACAGAGTGAGCTGCAGGAGAGCCAGGGCCACATAGACACTGTCTTGAAAAACAAAACAAAAAGTATGGCCTCTTTTCTCATTAATTGTCATTACATACATATCATAGATATATCCATTAGAACTGGACTCTGTAGCTCTACATTTTGGTTGGTTGTGGTTTTCTGTCTGATGCAGGAAGAAATGTCCTTAATGTGGGGTGTCTAACACATTTCTTTACAATAAAAATTAACAAGTATTGCAGTACCACAAAGCTAATGCTACTTATACAACATTGGTTTGATTATTTTTTGTGACTGTCCTTTCATAGCTGCAGTATTTCTTCCTATGTTCTTAAAACTTCTTAAAATAGATTTGTCCACGTTTGTATTTATGTTGAAACAGTAACACAATGTATACTGTCTGATACTATTTTTAATTAAATTTTATATTAAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCACGTTTGTATTTATGTTGA
57.14
AGGTGTGACACTGTAATCCAGA
58.76
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCCACGTTTGTATTTATGTTG
55.79
AGGTGTGACACTGTAATCCAGA
58.76
149
PCR template sequence:
ACTTCTTAAAATAGATTTGTCCACGTTTGTATTTATGTTGAAACAGTAACACAATGTATACTGTCTGATACTATTTTTAATTAAATTTTATATTAAATAGGTAATAATTCTTTTAATGATAACGACTTCTAGTGTTCAGAGATTTCTGGATTACAGTGTCACACCTATTATTATCTTTACCTGAAACATCTTGCTTTTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-149-5p(1), mmu-miR-466a-5p(1), mmu-miR-190b-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TTATATTAAATAGGTAATAATTCTTT
siRNA sets
ATTATTACCTATTTAATAT, AAAGAATTATTACCTATTT, AATTATTACCTATTTAATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.979586385
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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