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mmu_circTm9sf3_196
Basic information of circular RNA
PanCircBase ID:
mmu_circTm9sf3_196
mm39_Chr. Position ID:
chr19|41244583|41244779|-
Gene name:
Tm9sf3
Transcript:
ENSMUST00000025989.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
196
Exon/intron sizes in nt:
196
Flanking exon/introns:
chr19:41236467-41244583|chr19:41244779-41252197
Splice length:
196
Other database IDs:
circAtlas: mmu-Tm9sf3_0022
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_173840
Human Ortholog IDs:
Mature spliced Sequence:
TATCAAGATAAAGAAGAAGTTGTTTTATGGATGAATACTGTTGGGCCCTACCACAATCGCCAAGAAACATATAAATACTTTTCACTTCCATTCTGTGTGGGGTCAAAAAAAAGTATCAGTCATTACCATGAAACTTTGGGAGAAGCACTTCAAGGAGTTGAATTAGAATTTAGTGGCCTGGACATTAAATTTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAGAAGCACTTCAAGGAG
59.65
TCTTGGCGATTGTGGTAGGG
59.75
125
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAGAAGCACTTCAAGGAGT
59.65
TCTTGGCGATTGTGGTAGGG
59.75
124
PCR template sequence:
GGGGTCAAAAAAAAGTATCAGTCATTACCATGAAACTTTGGGAGAAGCACTTCAAGGAGTTGAATTAGAATTTAGTGGCCTGGACATTAAATTTAAAGTATCAAGATAAAGAAGAAGTTGTTTTATGGATGAATACTGTTGGGCCCTACCACAATCGCCAAGAAACATATAAATACTTTTCACTTCCATTCTGTGT
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
ATTAAATTTAAAGTATCAAGATAAAG
siRNA sets
TTATCTTGATACTTTAAAT, TTTATCTTGATACTTTAAA, TATCTTGATACTTTAAATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTM9SF3_196_ORF_1
0.6748
-0.1775787
0.030883603
177
ORF sequence:
ATGAATACTGTTGGGCCCTACCACAATCGCCAAGAAACATATAAATACTTTTCACTTCCATTCTGTGTGGGGTCAAAAAAAAGTATCAGTCATTACCATGAAACTTTGGGAGAAGCACTTCAAGGAGTTGAATTAGAATTTAGTGGCCTGGACATTAAATTTAAAGTATCAAGATAA
Peptide sequence:
MNTVGPYHNRQETYKYFSLPFCVGSKKSISHYHETLGEALQGVELEFSGLDIKFKVSR
IRESfinder result
IRESfinder score
0.816296773
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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