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mmu_ciThada_880
Basic information of circular RNA
PanCircBase ID:
mmu_ciThada_880
mm39_Chr. Position ID:
chr17|84743142|84744022|-
Gene name:
Thada
Transcript:
ENSMUST00000047524.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
880
Exon/intron sizes in nt:
880
Flanking exon/introns:
chr17:84743138-84744022
Splice length:
880
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCATCAGCAACGTCGGGAAACATACACTCTGTTAGCATATTGCTGTACTTGACATTTGGATTTTATTGTTTCTATATAGATTCCCTTTTAATACATAGCTCTCATTTGTGCATAATTAAAGTTGCTAGTGAAGGGAAGTGAGAGAGAGAGAGAGCTGTCTCCTCCTGTTTGTCACTTTCCAAGCGCATACTAAACCTGGGTCCTTGGTGTGGGTCTTCTTGCTCACCACACCAAGACTGCCTGATCTCTCCTGCCATGTTTATTTGTGCTGGTATAAGTAAGGGCTTCATCTCTTAAGTTTAAAATGAAAACCATAATGGCTTATCTTGTATTTAATATATAAGATGAATGAGGCTTTGTGGTTAAAATGTGGTTTCTCATATATGCCATCTGCTTGAAGATTTCTACACTTTTAGAAATCACATAAAATAATACAAAAATCATTACATACCAACAAATTAAATTATCTATATGAAATGTACATTGATTCTAGGAAATGCTTTTAAATCTTAAATATATGGTCCAAGTCCACACCATTGAGCTCTGCTTTTTAAACTGCTGCGGTGGCAGTGGAGGTGTGAGAGGCAGGAGGTTTACTGCAAGCTCATTGGTAGGTTCCAGGTATGTGGTCTCCGTAGTTCCTTTGGGTTTGTAATTTTTGCTCAAAACCTATCACTTTTCACATTTTTAAAGCCATAGTACTTGGTTGTCATTTGAAGAGATACAGTTCTGCGATTGTGCATAGTGTATGTTGTGTAAAGTACAAAGTGAAATCTTAACTGTAGATGAAGCAGGAAGTATGAATTTTTGTATTGCTCTTATATAAATATTTGGCCATATAGCTTTGGGCAGTTTGATTTTTGTTTATTTAAATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACTGTAGATGAAGCAGGAAGT
57.1
TGCTAACAGAGTGTATGTTTCCC
58.42
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACTGTAGATGAAGCAGGAAGT
57
GCTAACAGAGTGTATGTTTCCCG
59.38
140
PCR template sequence:
TAACTGTAGATGAAGCAGGAAGTATGAATTTTTGTATTGCTCTTATATAAATATTTGGCCATATAGCTTTGGGCAGTTTGATTTTTGTTTATTTAAATTTGTAAGCATCAGCAACGTCGGGAAACATACACTCTGTTAGCATATTGCTGTACTTGACATTTGGATTTTATTGTTTCTATATAGATTCCCTTTTAATACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-30c-5p(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-381-3p(1), mmu-miR-324-3p(1), mmu-miR-384-3p(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATTTAAATTTGTAAGCATCAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.877419402
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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