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mmu_circTbc1d1_201
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d1_201
mm39_Chr. Position ID:
chr5|64417695|64420922|+
Gene name:
Tbc1d1
Transcript:
ENSMUST00000043893.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,3116
Genomic length:
3227
Exon/intron sizes in nt:
90,111
Flanking exon/introns:
chr5:64414498-64417695|chr5:64420922-64421668
Splice length:
201
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTGGCCAATCTGAAGTTTACCTCATCAGTCCTGACACCAAAAAGATTGCACTGGAGAAAAATTTTAAGGAGATATCCTTTTGCTCTCAGGGCATCAGACATGTGGACCACTTTGGATTCATCTGCCGAGAGTGCTCGGGTGGCGGCAGTGGCGGCTTTCATTTTGTCTGTTACGTGTTCCAGTGCACAAATGAAGCTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTGGCGGCTTTCATTTT
60.32
GTCTGATGCCCTGAGAGCAA
59.75
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCATCTGCCGAGAGTGCTC
59.83
TGCCCTGAGAGCAAAAGGAT
59.3
178
PCR template sequence:
TGTGGACCACTTTGGATTCATCTGCCGAGAGTGCTCGGGTGGCGGCAGTGGCGGCTTTCATTTTGTCTGTTACGTGTTCCAGTGCACAAATGAAGCTCTGATTGGCCAATCTGAAGTTTACCTCATCAGTCCTGACACCAAAAAGATTGCACTGGAGAAAAATTTTAAGGAGATATCCTTTTGCTCTCAGGGCATCAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-130a-3p(1), mmu-miR-125b-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATGAAGCTCTGATTGGCCAATCTG
siRNA sets
TTGGCCAATCAGAGCTTCA, AGATTGGCCAATCAGAGCT, CAGATTGGCCAATCAGAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D1_201_ORF_1
0.8715
0.007796241
0.05396719
102
ORF sequence:
ATGTGGACCACTTTGGATTCATCTGCCGAGAGTGCTCGGGTGGCGGCAGTGGCGGCTTTCATTTTGTCTGTTACGTGTTCCAGTGCACAAATGAAGCTCTGA
Peptide sequence:
MWTTLDSSAESARVAAVAAFILSVTCSSAQMKL
IRESfinder result
IRESfinder score
0.836564961
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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