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mmu_circTomm70a_411
Basic information of circular RNA
PanCircBase ID:
mmu_circTomm70a_411
mm39_Chr. Position ID:
chr16|56953439|56957170|+
Gene name:
Tomm70a
Transcript:
ENSMUST00000166897.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1576,3621
Genomic length:
3731
Exon/intron sizes in nt:
174,127,110
Flanking exon/introns:
chr16:56942557-56953439|chr16:56957170-56958392
Splice length:
411
Other database IDs:
circAtlas: mmu-Tomm70a_0002
circAtlas: hsa-TOMM70_0002, CIRCpedia: HSA_CIRCpedia_105188
Human Ortholog IDs:
Mature spliced Sequence:
AGCTCTCTGGACAGAGCGCAAGCAGCCAAAAACAAAGGCAACAAATATTTCAAAGCAGGAAAATACGAGCAAGCTATTCAGTGCTACACTGAGGCTATTAGTTTGTGCCCTACTGAGAAGAATGTAGACCTTTCTACATTTTATCAGAACAGAGCTGCTGCCTTTGAACAATTGCAAAAATGGAAAGAAGTGGCCCAAGATTGTACAAAGGCTGTTGAACTTAATCCCAAATATGTGAAAGCCCTCTTTAGACGTGCAAAAGCCCATGAGAAGCTAGACAATAAGAAGGAGTGTTTAGAAGACGTCACTGCTGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGCATGCTGTTAGCTGA
57.98
AGCACTGAATAGCTTGCTCGT
60.07
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTTTCAAAATGAGCAGAGCA
59.7
AGCACTGAATAGCTTGCTCGT
60.07
169
PCR template sequence:
TGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAGAGCTCTCTGGACAGAGCGCAAGCAGCCAAAAACAAAGGCAACAAATATTTCAAAGCAGGAAAATACGAGCAAGCTATTCAGTGCTACACTGAGGCTATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAAAATACAAGAGCTCTCTGGACA
siRNA sets
AGAGCTCTTGTATTTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTOMM70A_411_ORF_1
1.0414
0.111943825
0.634724221
474
ORF sequence:
ATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAGAGCTCTCTGGACAGAGCGCAAGCAGCCAAAAACAAAGGCAACAAATATTTCAAAGCAGGAAAATACGAGCAAGCTATTCAGTGCTACACTGAGGCTATTAGTTTGTGCCCTACTGAGAAGAATGTAGACCTTTCTACATTTTATCAGAACAGAGCTGCTGCCTTTGAACAATTGCAAAAATGGAAAGAAGTGGCCCAAGATTGTACAAAGGCTGTTGAACTTAATCCCAAATATGTGAAAGCCCTCTTTAGACGTGCAAAAGCCCATGAGAAGCTAGACAATAAGAAGGAGTGTTTAGAAGACGTCACTGCTGTGTGTATATTAGAAGGGTTTCAAAATGAGCAGAGCATGCTGTTAGCTGATAAAGTTCTTAAACTTCTTGGGAAAGAGAATGCCAAAGAAAAATACAAG
Peptide sequence:
MLLADKVLKLLGKENAKEKYKSSLDRAQAAKNKGNKYFKAGKYEQAIQCYTEAISLCPTEKNVDLSTFYQNRAAAFEQLQKWKEVAQDCTKAVELNPKYVKALFRRAKAHEKLDNKKECLEDVTAVCILEGFQNEQSMLLADKVLKLLGKENAKEKYK
IRESfinder result
IRESfinder score
0.547793409
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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