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mmu_circAtxn2_306
Basic information of circular RNA
PanCircBase ID:
mmu_circAtxn2_306
mm39_Chr. Position ID:
chr5|121923277|121923929|+
Gene name:
Atxn2
Transcript:
ENSMUST00000051950.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,13
Exon/intron offsets:
0,544
Genomic length:
652
Exon/intron sizes in nt:
1,98,108
Flanking exon/introns:
chr5:121922102-121923277|chr5:121923929-121924396
Splice length:
306
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTCCAAGGTTATCTCCCAAAACTCACAGACCCAGGTCTCCCAGGCAGAGCAGCATTGGAAACTCTCCCAGCGGGCCTGTGCTTGCTTCTCCCCAAGCTGGCATCATCCCTGCAGAAGCCGTTTCCATGCCTGTTCCCGCCGCATCTCCGACTCCTGCCAGCCCTGCATCCAACAGAGCACTGACCCCATCTATTGAGGCAAAAGATTCCAGGCTTCAAGATCAGAGGCAGAACTCTCCTGCAGGGAGTAAAGAAAATGTTAAAGCAAGTGAAACATCACCTAGCTTTTCAAAAGCTGACAACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTTCAAGATCAGAGGCA
60.07
GTTTCCAATGCTGCTCTGCC
60.11
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTTCAAGATCAGAGGCA
60.07
TTTCCAATGCTGCTCTGCCT
60.25
159
PCR template sequence:
TCCAGGCTTCAAGATCAGAGGCAGAACTCTCCTGCAGGGAGTAAAGAAAATGTTAAAGCAAGTGAAACATCACCTAGCTTTTCAAAAGCTGACAACAAAGTTCCAAGGTTATCTCCCAAAACTCACAGACCCAGGTCTCCCAGGCAGAGCAGCATTGGAAACTCTCCCAGCGGGCCTGTGCTTGCTTCTCCCCAAGCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GCTGACAACAAAGTTCCAAGGTTATC
siRNA sets
TAACCTTGGAACTTTGTTG,AACCTTGGAACTTTGTTGT,GATAACCTTGGAACTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATXN2_306_ORF_1
1.075
0.032843709
0.594626831
486
ORF sequence:
ATGCCTGTTCCCGCCGCATCTCCGACTCCTGCCAGCCCTGCATCCAACAGAGCACTGACCCCATCTATTGAGGCAAAAGATTCCAGGCTTCAAGATCAGAGGCAGAACTCTCCTGCAGGGAGTAAAGAAAATGTTAAAGCAAGTGAAACATCACCTAGCTTTTCAAAAGCTGACAACAAAGTTCCAAGGTTATCTCCCAAAACTCACAGACCCAGGTCTCCCAGGCAGAGCAGCATTGGAAACTCTCCCAGCGGGCCTGTGCTTGCTTCTCCCCAAGCTGGCATCATCCCTGCAGAAGCCGTTTCCATGCCTGTTCCCGCCGCATCTCCGACTCCTGCCAGCCCTGCATCCAACAGAGCACTGACCCCATCTATTGAGGCAAAAGATTCCAGGCTTCAAGATCAGAGGCAGAACTCTCCTGCAGGGAGTAAAGAAAATGTTAAAGCAAGTGAAACATCACCTAGCTTTTCAAAAGCTGACAACAAA
Peptide sequence:
MPVPAASPTPASPASNRALTPSIEAKDSRLQDQRQNSPAGSKENVKASETSPSFSKADNKVPRLSPKTHRPRSPRQSSIGNSPSGPVLASPQAGIIPAEAVSMPVPAASPTPASPASNRALTPSIEAKDSRLQDQRQNSPAGSKENVKASETSPSFSKADNK
IRESfinder result
IRESfinder score
0.704782788
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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