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mmu_ciUsp16_490
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp16_490
mm39_Chr. Position ID:
chr16|87266750|87267240|+
Gene name:
Usp16
Transcript:
ENSMUST00000026710.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
490
Exon/intron sizes in nt:
490
Flanking exon/introns:
chr16:87266750-87267241
Splice length:
490
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACAAAGTTATCTTTTCCCCTAAGCTCTGACACTTAGTGTTGATTTTTATCTTCCCTGTGTGAATTCTGTGTATTCAGTGTAACAAGTGGTTACAACATGCAATAAAACACTGGCAAGCACTGGTGGTAACAGAGTTTCAAACAGTCGTGGCCCTGCTTTCATGAGGCATGACTTTGCATCAGGGAAACACAGGGTAGCCTGGTTCAGAAAGAAGTGTGTAGTTGGAGTGGTAGCAAGTGATGAGAGTTATTGCTGGGATTATTTCCACCCTAGTCCTAGCCGGAGGACGCAGCTCTGAAGTGCTGTGTGCTGAGACCTGATAACATGAGCTGTGGTGTGTGTGGAGAAGAGCTGCAGGCTTTCCTCTCCTAGGTAGAGATCGCAGAGACGCAGTGTTGGTTGTAGTTTTCTGTTTTGGTAGACTAAGCACTTAATGTTTGAATGGCTTGACGATACACTTACCCCTTTGCTTCCATCCTGCTTTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGCAGTGTTGGTTGTAGTT
57.97
ACTAAGTGTCAGAGCTTAGGGG
58.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGCAGTGTTGGTTGTAGTT
57.97
CACTAAGTGTCAGAGCTTAGGGG
60.12
141
PCR template sequence:
ACGCAGTGTTGGTTGTAGTTTTCTGTTTTGGTAGACTAAGCACTTAATGTTTGAATGGCTTGACGATACACTTACCCCTTTGCTTCCATCCTGCTTTGTAGTAACAAAGTTATCTTTTCCCCTAAGCTCTGACACTTAGTGTTGATTTTTATCTTCCCTGTGTGAATTCTGTGTATTCAGTGTAACAAGTGGTTACAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-199a-5p(1), mmu-miR-207(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCCTGCTTTGTAGTAACAAAGTTAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIUSP16_490_ORF_3
0.5386
-0.393896662
0.005465695
93
ORF sequence:
ATGTTTGAATGGCTTGACGATACACTTACCCCTTTGCTTCCATCCTGCTTTGTAGTAACAAAGTTATCTTTTCCCCTAAGCTCTGACACTTAG
Peptide sequence:
MFEWLDDTLTPLLPSCFVVTKLSFPLSSDT
IRESfinder result
IRESfinder score
0.764152773
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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