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mmu_ciUsp9x_482
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp9x_482
mm39_Chr. Position ID:
chrX|12973419|12973901|+
Gene name:
Usp9x
Transcript:
ENSMUST00000169594.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
482
Exon/intron sizes in nt:
482
Flanking exon/introns:
chrX:12973419-12973902
Splice length:
482
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAACATTTTAAAGCCACATGTTAAATATGTTATTGCTGTTTTTATTTTGGCTCAATTCAGAAATGGAGTAGTTGGAGCTGGAGAGATGATTGCTCAGTGCTTAAGTGGCTGTTCTTTCAGATAGTAAACGTGAGGTTTATTCCCTGTACCTATGGCAGGTAGCTCAAAACTGTCTTTAACACCAGCTCTAGGAGAATCCAGCGTCTCTGGCTTCTGAGGGCATCTATCTGCCTATATACCTAATCCAAATGTGAATACATACACATAGAATGTCTTAAAAATAATACATGTCACTCGGGAGGCAGAGGCAGGTGAATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAATTCCAGGACAGCCAAGGCTACACAGAGAAACCCTGTCTTGAAAAAAAAATACATGTACTATGAGAATTTACTAAGTTGAGGTTAAGAAGTCAAGTATTTACGGGGGTTTTCTTTTCTTATTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGTCAAGTATTTACGGGGGT
59.71
AGCAATCATCTCTCCAGCTCC
59.58
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGTCAAGTATTTACGGGGG
58.16
AGCAATCATCTCTCCAGCTCC
59.58
140
PCR template sequence:
GAGAAACCCTGTCTTGAAAAAAAAATACATGTACTATGAGAATTTACTAAGTTGAGGTTAAGAAGTCAAGTATTTACGGGGGTTTTCTTTTCTTATTTCAGTAAGTAACATTTTAAAGCCACATGTTAAATATGTTATTGCTGTTTTTATTTTGGCTCAATTCAGAAATGGAGTAGTTGGAGCTGGAGAGATGATTGCTC
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-322-5p(1), mmu-miR-138-5p(1), mmu-miR-136-5p(1), mmu-miR-297a-5p(1), mmu-miR-1187(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTCTTATTTCAGTAAGTAACATTT
siRNA sets
AATGTTACTTACTGAAATA,GTTACTTACTGAAATAAGA,TTACTTACTGAAATAAGAA
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
0.83378158
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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