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mmu_circTada2a_219
Basic information of circular RNA
PanCircBase ID:
mmu_circTada2a_219
mm39_Chr. Position ID:
chr11|83981374|83984473|-
Gene name:
Tada2a
Transcript:
ENSMUST00000018795.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,1427,3035
Genomic length:
3099
Exon/intron sizes in nt:
111,44,64
Flanking exon/introns:
chr11:83978008-83981374|chr11:83984473-83993878
Splice length:
219
Other database IDs:
circAtlas: mmu-Tada2a_0003
circBase: hsa_circ_0106721, circAtlas: hsa-TADA2A_0005, CIRCpedia: HSA_CIRCpedia_67198
Human Ortholog IDs:
Mature spliced Sequence:
CTCTGAAGATGGCTGTGGTGGATATCTATCATTCCAGGTTAAAAGAGAGGCAAAGAAGAAAAAAGATTATAAGAGATCACGGATTAGTCAACCTTAGGAAGTTCCGATTAATGGAACGGCGGTATCCCAAGGAGGTCCAAGACCTTTATGAAACAATGAGGAGATTTGCAAGGATTGTGGGACCCGTGGAGCACGACAAGTTCATTGAAAGCCATGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGTATCCCAAGGAGGTCCA
60.69
TGCCTCTCTTTTAACCTGGA
56.06
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGTATCCCAAGGAGGTCCA
60.69
TGCCTCTCTTTTAACCTGGAATGA
59.96
152
PCR template sequence:
CGGTATCCCAAGGAGGTCCAAGACCTTTATGAAACAATGAGGAGATTTGCAAGGATTGTGGGACCCGTGGAGCACGACAAGTTCATTGAAAGCCATGCATCTCTGAAGATGGCTGTGGTGGATATCTATCATTCCAGGTTAAAAGAGAGGCAAAGAAGAAAAAAGATTATAAGAGATCACGGATTAGTCAACCTTAGGAA
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-135a-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAGCCATGCATCTCTGAAGATGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTADA2A_219_ORF_1
0.9353
0.143273807
0.541789875
429
ORF sequence:
ATGGCTGTGGTGGATATCTATCATTCCAGGTTAAAAGAGAGGCAAAGAAGAAAAAAGATTATAAGAGATCACGGATTAGTCAACCTTAGGAAGTTCCGATTAATGGAACGGCGGTATCCCAAGGAGGTCCAAGACCTTTATGAAACAATGAGGAGATTTGCAAGGATTGTGGGACCCGTGGAGCACGACAAGTTCATTGAAAGCCATGCATCTCTGAAGATGGCTGTGGTGGATATCTATCATTCCAGGTTAAAAGAGAGGCAAAGAAGAAAAAAGATTATAAGAGATCACGGATTAGTCAACCTTAGGAAGTTCCGATTAATGGAACGGCGGTATCCCAAGGAGGTCCAAGACCTTTATGAAACAATGAGGAGATTTGCAAGGATTGTGGGACCCGTGGAGCACGACAAGTTCATTGAAAGCCATGCA
Peptide sequence:
MAVVDIYHSRLKERQRRKKIIRDHGLVNLRKFRLMERRYPKEVQDLYETMRRFARIVGPVEHDKFIESHASLKMAVVDIYHSRLKERQRRKKIIRDHGLVNLRKFRLMERRYPKEVQDLYETMRRFARIVGPVEHDKFIESHA
IRESfinder result
IRESfinder score
0.383818707
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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