top of page
mmu_circStau1_443
Basic information of circular RNA
PanCircBase ID:
mmu_circStau1_443
mm39_Chr. Position ID:
chr2|166792150|166793020|-
Gene name:
Stau1
Transcript:
ENSMUST00000109235.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,9
Exon/intron offsets:
0,550
Genomic length:
870
Exon/intron sizes in nt:
1,23,320
Flanking exon/introns:
chr2:166791749-166792150|chr2:166793020-166793190
Splice length:
443
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACAAGGACGAGGAGTTCAGGATGCCTTATCTTAGCCATCAGCAGCTGCCAGCTGGAATTCTCCCCATGGTGCCGGAAGTTGCCCAGGCTGTCGGGGTTAGTCAAGGACACCACACCAAAGATTTCACCAGGGCAGCTCCAAATCCTGCCAAGGCAACGGTAACTGCCATGATAGCCCGAGAGTTGTTGTACGGGGGCACCTCGCCCACAGCCGAGACCATTTTAAAGAGTAACATCTCTTCAGGCCACGTACCCCATGGACCTCGCACTAGACCCTCTGAGCAACTGTACTACCTTTCCAGAGCCCAGGGATTCCAGGTTGAATACAAAGATTTTCCCAAGAACAACAAGAACGAGTGTGTATCTCTCATCAACTGCTCCTCACAGCCGCCTCTCGTCAGTCATGGCATCGGCAAGGATGTGGAGTCCTGTCATGATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAACTGCTCCTCACAGCC
60.04
GCACCATGGGGAGAATTCCA
60.03
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAACTGCTCCTCACAGCC
60.04
ACCATGGGGAGAATTCCAGC
59.74
145
PCR template sequence:
GAACAACAAGAACGAGTGTGTATCTCTCATCAACTGCTCCTCACAGCCGCCTCTCGTCAGTCATGGCATCGGCAAGGATGTGGAGTCCTGTCATGATATGGTAACAAGGACGAGGAGTTCAGGATGCCTTATCTTAGCCATCAGCAGCTGCCAGCTGGAATTCTCCCCATGGTGCCGGAAGTTGCCCAGGCTGTCGGGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-196a-5p(1), mmu-let-7d-5p(1), mmu-miR-22-3p(1), mmu-miR-362-5p(1), mmu-miR-98-5p(1), mmu-miR-697(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTCATGATATGGTAACAAGGACGA
siRNA sets
CTTGTTACCATATCATGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTAU1_443_ORF_1
0.6562
0.173047975
0.707962928
585
ORF sequence:
ATGCCTTATCTTAGCCATCAGCAGCTGCCAGCTGGAATTCTCCCCATGGTGCCGGAAGTTGCCCAGGCTGTCGGGGTTAGTCAAGGACACCACACCAAAGATTTCACCAGGGCAGCTCCAAATCCTGCCAAGGCAACGGTAACTGCCATGATAGCCCGAGAGTTGTTGTACGGGGGCACCTCGCCCACAGCCGAGACCATTTTAAAGAGTAACATCTCTTCAGGCCACGTACCCCATGGACCTCGCACTAGACCCTCTGAGCAACTGTACTACCTTTCCAGAGCCCAGGGATTCCAGGTTGAATACAAAGATTTTCCCAAGAACAACAAGAACGAGTGTGTATCTCTCATCAACTGCTCCTCACAGCCGCCTCTCGTCAGTCATGGCATCGGCAAGGATGTGGAGTCCTGTCATGATATGGTAACAAGGACGAGGAGTTCAGGATGCCTTATCTTAGCCATCAGCAGCTGCCAGCTGGAATTCTCCCCATGGTGCCGGAAGTTGCCCAGGCTGTCGGGGTTAGTCAAGGACACCACACCAAAGATTTCACCAGGGCAGCTCCAAATCCTGCCAAGGCAACGGTAA
Peptide sequence:
MPYLSHQQLPAGILPMVPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKSNISSGHVPHGPRTRPSEQLYYLSRAQGFQVEYKDFPKNNKNECVSLINCSSQPPLVSHGIGKDVESCHDMVTRTRSSGCLILAISSCQLEFSPWCRKLPRLSGLVKDTTPKISPGQLQILPRQR
IRESfinder result
IRESfinder score
0.500422862
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page