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mmu_circUxs1_162
Basic information of circular RNA
PanCircBase ID:
mmu_circUxs1_162
mm39_Chr. Position ID:
chr1|43792876|43794916|-
Gene name:
Uxs1
Transcript:
ENSMUST00000126008.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,13
Exon/intron offsets:
0,1982
Genomic length:
2040
Exon/intron sizes in nt:
104,58
Flanking exon/introns:
chr1:43789522-43792876|chr1:43794916-43796131
Splice length:
162
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAAATCCAGAAGAACACACAATCCTGGAATTTGCTCAGTTAATTAAAAACCTTGTTGGTAGTGGAAGTGAAATTCAGTTTCTCTCTGAAGCCCAGGATGACCCACAGAAAAGAAAACCAGACATCAAAAAAGCAAAACTGATGCTGGGGTGGGAACCTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGAAGCCCAGGATGACC
59.82
TCACTTCCACTACCAACAAGG
57.51
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGAAGCCCAGGATGACC
59.82
TTCACTTCCACTACCAACAAGG
58.18
151
PCR template sequence:
CTCTCTGAAGCCCAGGATGACCCACAGAAAAGAAAACCAGACATCAAAAAAGCAAAACTGATGCTGGGGTGGGAACCTGTGGGAAATCCAGAAGAACACACAATCCTGGAATTTGCTCAGTTAATTAAAAACCTTGTTGGTAGTGGAAGTGAAATTCAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGGAACCTGTGGGAAATCCAGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUXS1_162_ORF_1
1.0715
0.074122779
0.163224074
183
ORF sequence:
ATGCTGGGGTGGGAACCTGTGGGAAATCCAGAAGAACACACAATCCTGGAATTTGCTCAGTTAATTAAAAACCTTGTTGGTAGTGGAAGTGAAATTCAGTTTCTCTCTGAAGCCCAGGATGACCCACAGAAAAGAAAACCAGACATCAAAAAAGCAAAACTGATGCTGGGGTGGGAACCTGTG
Peptide sequence:
MLGWEPVGNPEEHTILEFAQLIKNLVGSGSEIQFLSEAQDDPQKRKPDIKKAKLMLGWEPV
IRESfinder result
IRESfinder score
0.64862656
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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