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mmu_circStau1_312
Basic information of circular RNA
PanCircBase ID:
mmu_circStau1_312
mm39_Chr. Position ID:
chr2|166796819|166802041|-
Gene name:
Stau1
Transcript:
ENSMUST00000109235.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,5123
Genomic length:
5222
Exon/intron sizes in nt:
213,99
Flanking exon/introns:
chr2:166795271-166796819|chr2:166802041-166805348
Splice length:
312
Other database IDs:
circAtlas: mmu-Stau1_0004
Human Ortholog IDs:
Mature spliced Sequence:
GTAAATGGAAGAGAAGCAGAGGAAGAAAACCTCAATAAATCGGAAATAAGCCAAGTGTTTGAAATTGCGCTGAAGCGGAATTTGCCTGTGAATTTTGAGGTGGCCCGGGAGAGTGGCCCACCACACATGAAGAACTTTGTGACCAGGGTTTCAGTTGGGGAATTTGTAGGGGAAGGAGAAGGGAAAAGCAAGAAGATCTCCAAGAAGAATGCGGCCAGGGCTGTTCTGGAGCAGCTTAGGAGGCTGCCACCCCTCCCTGCTGTGGAGCGAGTGAAGCCCAGAATCAAGAAGAAAAGTCAGCCCACCTGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCGAGTGAAGCCCAGAAT
60.11
TTCACAGGCAAATTCCGCTTC
59.73
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCGAGTGAAGCCCAGAAT
60.11
TTCACAGGCAAATTCCGCTT
58.67
140
PCR template sequence:
GGCCAGGGCTGTTCTGGAGCAGCTTAGGAGGCTGCCACCCCTCCCTGCTGTGGAGCGAGTGAAGCCCAGAATCAAGAAGAAAAGTCAGCCCACCTGCAAGGTAAATGGAAGAGAAGCAGAGGAAGAAAACCTCAATAAATCGGAAATAAGCCAAGTGTTTGAAATTGCGCTGAAGCGGAATTTGCCTGTGAATTTTGAGG
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-211-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCCCACCTGCAAGGTAAATGGAAGAG
siRNA sets
CTTCCATTTACCTTGCAGG,TCTTCCATTTACCTTGCAG,CTCTTCCATTTACCTTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTAU1_312_ORF_1
1.1666
0.282555035
0.840337359
498
ORF sequence:
ATGAAGAACTTTGTGACCAGGGTTTCAGTTGGGGAATTTGTAGGGGAAGGAGAAGGGAAAAGCAAGAAGATCTCCAAGAAGAATGCGGCCAGGGCTGTTCTGGAGCAGCTTAGGAGGCTGCCACCCCTCCCTGCTGTGGAGCGAGTGAAGCCCAGAATCAAGAAGAAAAGTCAGCCCACCTGCAAGGTAAATGGAAGAGAAGCAGAGGAAGAAAACCTCAATAAATCGGAAATAAGCCAAGTGTTTGAAATTGCGCTGAAGCGGAATTTGCCTGTGAATTTTGAGGTGGCCCGGGAGAGTGGCCCACCACACATGAAGAACTTTGTGACCAGGGTTTCAGTTGGGGAATTTGTAGGGGAAGGAGAAGGGAAAAGCAAGAAGATCTCCAAGAAGAATGCGGCCAGGGCTGTTCTGGAGCAGCTTAGGAGGCTGCCACCCCTCCCTGCTGTGGAGCGAGTGAAGCCCAGAATCAAGAAGAAAAGTCAGCCCACCTGCAAG
Peptide sequence:
MKNFVTRVSVGEFVGEGEGKSKKISKKNAARAVLEQLRRLPPLPAVERVKPRIKKKSQPTCKVNGREAEEENLNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTRVSVGEFVGEGEGKSKKISKKNAARAVLEQLRRLPPLPAVERVKPRIKKKSQPTCK
IRESfinder result
IRESfinder score
0.368428401
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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