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mmu_ciPrpf40a_371
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrpf40a_371
mm39_Chr. Position ID:
chr2|53042598|53042969|-
Gene name:
Prpf40a
Transcript:
ENSMUST00000076313.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
371
Exon/intron sizes in nt:
371
Flanking exon/introns:
chr2:53042566-53042969
Splice length:
371
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGTTTCTAACGATGTGGAAAGTGATTGTCTGTTGTTTGTGTCCGACGTATTGCCAGCTCGTCCAGAATAGTTGGGAGTGAGCATAGCTGTGGAAATGAGGATGTGGCAGTTCTGTAAGGCACTGCAAGTTTACATAGAAGCCAACTTTTAAGCTATTAATGAGGGAATAAACGTACCACATTAGCTGTTATCTGTTTTACAGTCTGCAGAAGGTGCCTTAATGTAAGAGAAAGAATAGGCTTTGCTCTTCTGTTGAGATTTTATTGTCTGTCATAGAATTTTCCTAAGTAGTGATTTTTAAACTGAACAGTGGAGAGTGTTCATTAACTACCTATGAAAAATGATCTAAAATTAGTACTAATGCATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGAACAGTGGAGAGTGTT
56.32
CCACAGCTATGCTCACTCCC
60.18
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACTGAACAGTGGAGAGTGT
56.32
CCACAGCTATGCTCACTCCC
60.18
163
PCR template sequence:
CTGTCATAGAATTTTCCTAAGTAGTGATTTTTAAACTGAACAGTGGAGAGTGTTCATTAACTACCTATGAAAAATGATCTAAAATTAGTACTAATGCATTGTAAGGTTTCTAACGATGTGGAAAGTGATTGTCTGTTGTTTGTGTCCGACGTATTGCCAGCTCGTCCAGAATAGTTGGGAGTGAGCATAGCTGTGGAAAT
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-150-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTACTAATGCATTGTAAGGTTTCTAA
siRNA sets
TTAGAAACCTTACAATGCA,AAACCTTACAATGCATTAG,TAGAAACCTTACAATGCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPRPF40A_371_ORF_1
0.9709
-0.131749313
0.038633986
108
ORF sequence:
ATGAAAAATGATCTAAAATTAGTACTAATGCATTGTAAGGTTTCTAACGATGTGGAAAGTGATTGTCTGTTGTTTGTGTCCGACGTATTGCCAGCTCGTCCAGAATAG
Peptide sequence:
MKNDLKLVLMHCKVSNDVESDCLLFVSDVLPARPE
IRESfinder result
IRESfinder score
0.8246899
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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