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mmu_circAtxn7_250
Basic information of circular RNA
PanCircBase ID:
mmu_circAtxn7_250
mm39_Chr. Position ID:
chr14|8382230|8382480|-
Gene name:
Atxn7
Transcript:
ENSMUST00000022257.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
250
Exon/intron sizes in nt:
250
Flanking exon/introns:
chr14:8380567-8382230|chr14:8382480-8416739
Splice length:
250
Other database IDs:
circAtlas: hsa-ATXN7_0045
Human Ortholog IDs:
Mature spliced Sequence:
AAAGAAGACATAGCTCATCTAGCAAGCCTGCCTTGGCTGTTCCTCACACTTCAGTATTTTCCCTCTTACCTTCTCTGTCCAAAAGCAAAGGCAGTGGTGCTGGTGGAAGCAGCCGGCCTCCCAGTGGAGGGGTCCTTTGCGCATCCTCAAGCTCCAAGTTACTCAGATTGCCCAAAGAGAAACTTCCGCTCAGGGGAAACATGAAACCCATGCATCCCGTGCAACAGATTAAAGTCCCCCACGGACGAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAACCCATGCATCCCGT
60.03
GCACCACTGCCTTTGCTTTT
60.18
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAACCCATGCATCCCGT
60.03
ACCACTGCCTTTGCTTTTGG
59.53
148
PCR template sequence:
GCTCCAAGTTACTCAGATTGCCCAAAGAGAAACTTCCGCTCAGGGGAAACATGAAACCCATGCATCCCGTGCAACAGATTAAAGTCCCCCACGGACGAGTAAAGAAGACATAGCTCATCTAGCAAGCCTGCCTTGGCTGTTCCTCACACTTCAGTATTTTCCCTCTTACCTTCTCTGTCCAAAAGCAAAGGCAGTGGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(1), mmu-miR-351-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCACGGACGAGTAAAGAAGACATAG
siRNA sets
TATGTCTTCTTTACTCGTC,ATGTCTTCTTTACTCGTCC,TGTCTTCTTTACTCGTCCG
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
0.668309254
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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