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mmu_ciCaprin1_333
Basic information of circular RNA
PanCircBase ID:
mmu_ciCaprin1_333
mm39_Chr. Position ID:
chr2|103598814|103599147|-
Gene name:
Caprin1
Transcript:
ENSMUST00000028607.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
333
Exon/intron sizes in nt:
333
Flanking exon/introns:
chr2:103598814-103599147
Splice length:
333
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACGTAAATAGAGGTTAACTGATTGATTTGGGGTTAATTTTGTGGTGTCTAACAAGCATTGTTATAAAATATGACTTTGGGCAGTTTGCTTGTTTTTGTTGTTTTTCTTTAAACATTTATTATAGACAGCAACTTAATGTAGTTTGCTTAAAGTGACCTTCAAAATGGAACTATGTTGTATATGTTCTTAAGCTTCAGGGAAGCTCAGTAACTTAGCTGTAATACACTGCTATCTAGAAGGAGTTATCTATTCTGCTAGTGCTAAGCTGTCAGACTAGATATAGTTAACCAAAACTACCTTTCCTTTCACAACTAACTAGCTTGTCTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTAGTGCTAAGCTGTCAGAC
60.09
CAAGCAAACTGCCCAAAGTCA
59.86
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTAGTGCTAAGCTGTCAGAC
60.09
ACAAGCAAACTGCCCAAAGTC
59.86
173
PCR template sequence:
TCTAGAAGGAGTTATCTATTCTGCTAGTGCTAAGCTGTCAGACTAGATATAGTTAACCAAAACTACCTTTCCTTTCACAACTAACTAGCTTGTCTTTCAGGTACGTAAATAGAGGTTAACTGATTGATTTGGGGTTAATTTTGTGGTGTCTAACAAGCATTGTTATAAAATATGACTTTGGGCAGTTTGCTTGTTTTTGT
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-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-7a-5p(1), mmu-miR-196a-5p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-34b-5p(1), mmu-miR-3065-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTGTCTTTCAGGTACGTAAATAGA
siRNA sets
ATTTACGTACCTGAAAGAC, TATTTACGTACCTGAAAGA, CTATTTACGTACCTGAAAG
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
0.93860717
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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