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mmu_ciPrpf40a_783
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrpf40a_783
mm39_Chr. Position ID:
chr2|53047121|53047904|-
Gene name:
Prpf40a
Transcript:
ENSMUST00000076313.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
783
Exon/intron sizes in nt:
783
Flanking exon/introns:
chr2:53046997-53047904
Splice length:
783
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCAATTTTGAAAATCAGTATGGTTTACAAATTTGGCCATTTCTATCGCATTCATGTTTTAGATGTCCACTTTTTAAAAAGGATATGAATGCTGTTTAATTGGATTAGGGTAATGGTTTGATGTCTTTGGAAGGTTTTATGGAGGTTGTTAAAAGGGAAATATATTTACTCAAGTGTATGTTTTGCTAAACAAGTACTTTAATATGGGATGCACTGTTTGTGAATTAAGTTTCTCATTTTGGGAATGAGTGATTATATATCTCTGTTATAAAACTAATTTTTTTTGTCATCCTGAGGAATAGAACCACAGCCTTGCGTATGTTGGCAATCAACTACTGAGCTATATAAAGTTTCCCTTTACTTGACTTCCTGAGCCTTACGAGTTTTGATATATATCAAATATGTTATTCAAAGTAACAGACTGAGGTTTTATTGAAGTAATTGGACATTAGGAAATACAAGCATTTATATCAATGCCAATTGCAGGTTACTGTGCAGGTTTGATGAAAGCAAAATAGTGGTAGAAGTTGGAAGTGGTAACAATGCACAGTGGGAAGAATACAGTACTGCCTGAGGCTCATGTATCTGAGCCCAACCTACACAGTATGACTAGGTATTCTCTAAAACAAACATATGTTTAATATAGTCTTATTCTGTGGTCTTTTAGGATGGCTTTCTAGTTTACTGTCAATGATTTGTTTAGCCCTTTGTTCCATTAGTGTTGCAACTTTATAATTGGCTTTATTTACCAGTACTGTATTGAAATGACCAGTTCTCGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTTTAGCCCTTTGTTCCA
55.36
TGAATGCGATAGAAATGGCCA
58.07
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATTTGTTTAGCCCTTTGTTCCA
59.35
TGAATGCGATAGAAATGGCCA
58.07
146
PCR template sequence:
TTTACTGTCAATGATTTGTTTAGCCCTTTGTTCCATTAGTGTTGCAACTTTATAATTGGCTTTATTTACCAGTACTGTATTGAAATGACCAGTTCTCGTGGTAAGCAATTTTGAAAATCAGTATGGTTTACAAATTTGGCCATTTCTATCGCATTCATGTTTTAGATGTCCACTTTTTAAAAAGGATATGAATGCTGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-101a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-146a-5p(1), mmu-miR-33-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-101b-3p(1), mmu-miR-324-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-340-5p(1), mmu-miR-146b-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCAGTTCTCGTGGTAAGCAATTTTG
siRNA sets
CAAAATTGCTTACCACGAG, AAAATTGCTTACCACGAGA, ATTGCTTACCACGAGAACT
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
0.850229852
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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