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mmu_circTex26_488
Basic information of circular RNA
PanCircBase ID:
mmu_circTex26_488
mm39_Chr. Position ID:
chr5|149376758|149384462|+
Gene name:
Tex26
Transcript:
ENSMUST00000031667.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,3524,7527
Genomic length:
7704
Exon/intron sizes in nt:
16,61,45,177
Flanking exon/introns:
chr5:149369319-149376758|chr5:149384462-149386581
Splice length:
488
Other database IDs:
circAtlas: mmu-Tex26_0005
circBase: hsa_circ_0100219, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_142190
Human Ortholog IDs:
Mature spliced Sequence:
CCCAAAGAGCACCAGAAGACTAGGATTTACTTATTCGATTGGCGATCCTATTCTGAATGAGTCCCAGTACCACGATGAGTATACCTGGAAATTACGTTCTAAAGAAAATATGGTAAAAACCGGGACTTCAAGAGGAGTATGGAACCACAAAACTCACCCTGGTCAAGAATTCTTTCAGTGGACACACCCTAAAGGAAAACAAACCCAAAAGCTCCCTTGGATAGAGCCTCCTTCCGAGGAAAGCATACAGAACGCAGTAGCCAGCCAGTTCATCTCCTGTACCAAGAGGGACTTCGTAGACCTGACTCAATCTAAGAAGACCATGAAAAGATTTCCAAGGTCCCAGGACAGGAAATCACTCCTTCCCCGGCCTCTGGACACTGAATTTCGATATAATTACCAAATTCCAGCTCAAATTCCTGAATTGAAGGACTTTAGTTTCAAATATGGGTGCTACGCAAGCCTGCCTGTTGCCTCCCAGGGTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAATTCCAGCTCAAATTCCTG
60.02
CATCGTGGTACTGGGACTCA
58.82
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAATTCCAGCTCAAATTCCTG
60.02
ACTCATCGTGGTACTGGGAC
58.82
170
PCR template sequence:
CGATATAATTACCAAATTCCAGCTCAAATTCCTGAATTGAAGGACTTTAGTTTCAAATATGGGTGCTACGCAAGCCTGCCTGTTGCCTCCCAGGGTCTAGCCCAAAGAGCACCAGAAGACTAGGATTTACTTATTCGATTGGCGATCCTATTCTGAATGAGTCCCAGTACCACGATGAGTATACCTGGAAATTACGTTCT
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-709(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCAGGGTCTAGCCCAAAGAGCACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTEX26_488_ORF_1
0.4555
0.019993406
0.192135431
402
ORF sequence:
ATGGTAAAAACCGGGACTTCAAGAGGAGTATGGAACCACAAAACTCACCCTGGTCAAGAATTCTTTCAGTGGACACACCCTAAAGGAAAACAAACCCAAAAGCTCCCTTGGATAGAGCCTCCTTCCGAGGAAAGCATACAGAACGCAGTAGCCAGCCAGTTCATCTCCTGTACCAAGAGGGACTTCGTAGACCTGACTCAATCTAAGAAGACCATGAAAAGATTTCCAAGGTCCCAGGACAGGAAATCACTCCTTCCCCGGCCTCTGGACACTGAATTTCGATATAATTACCAAATTCCAGCTCAAATTCCTGAATTGAAGGACTTTAGTTTCAAATATGGGTGCTACGCAAGCCTGCCTGTTGCCTCCCAGGGTCTAGCCCAAAGAGCACCAGAAGACTAG
Peptide sequence:
MVKTGTSRGVWNHKTHPGQEFFQWTHPKGKQTQKLPWIEPPSEESIQNAVASQFISCTKRDFVDLTQSKKTMKRFPRSQDRKSLLPRPLDTEFRYNYQIPAQIPELKDFSFKYGCYASLPVASQGLAQRAPED
IRESfinder result
IRESfinder score
0.710850647
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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