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mmu_ciCfap298_657
Basic information of circular RNA
PanCircBase ID:
mmu_ciCfap298_657
mm39_Chr. Position ID:
chr16|90723328|90723985|-
Gene name:
Cfap298
Transcript:
ENSMUST00000129345.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
657
Exon/intron sizes in nt:
657
Flanking exon/introns:
chr16:90722970-90723985
Splice length:
657
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCACCTCTGCTTCCCATGTCAGTACTGTGGGTCCCTCTGACCCCGCGTGGACCTTACCCTGTGTCCTCTGACCCCGCGTGGACCTTACCCTGTGTCCTCTGACCCCGCGTGGACCTTACCCTGTGTCCTCTGACCCCGCATGGACCTTACCCTGTGTCCTCTGACCCCGTGTGGACTTTAGCCCAGTTTAAAGTAGAAATTTCCTTTCTATGTTGTTTCGACCTGAAAAGCAGGTCTACACACAGAAATGTCCTCATACTGACAATGCAGCCCACCGGGGTTATAGGGCTTTTCAGGCTGCTGCTGTTGTGTGCAGAAAAGGGTGGGAGGCAAGGGGAGCCATTCACCCAAGGTGTCTAGGGCACACTCCTGAACCATTACTGCGTACTTTGGGGAACAAGGCTTGGAGATTTCTGTTTCCTAAGTTATGACTCTGAGTATCACCCTGTCTGTGCTGGACCATGATATAGATGGTGTCCACTACAAATCCAGGGCGCCAGCCATATCCATGCCCATGCCCGACCCCACAGTGGCTTAGCAGCCCATCATCTTAGCTGTTAGCAGAGACAGCTATAGAATAAACCTGTTACTCTCTGATGTCCCTGCAAAGAGAATGTCTTGGCGCCCTGTTGACTCTGCCCTTGCCTTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGAATGTCTTGGCGCCC
60.68
GACACAGGGTAAGGTCCACG
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAATGTCTTGGCGCCCT
60.08
GACACAGGGTAAGGTCCACG
60.04
144
PCR template sequence:
GCTGTTAGCAGAGACAGCTATAGAATAAACCTGTTACTCTCTGATGTCCCTGCAAAGAGAATGTCTTGGCGCCCTGTTGACTCTGCCCTTGCCTTTGCAGGTGAGCACCTCTGCTTCCCATGTCAGTACTGTGGGTCCCTCTGACCCCGCGTGGACCTTACCCTGTGTCCTCTGACCCCGCGTGGACCTTACCCTGTGTC
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-540-3p(5), mmu-miR-101a-3p(1), mmu-miR-204-5p(1), mmu-miR-33-5p(1), mmu-miR-351-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGCCTTTGCAGGTGAGCACCTCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICFAP298_657_ORF_3
0.6033
-0.061721187
0.030717522
132
ORF sequence:
ATGTCCCTGCAAAGAGAATGTCTTGGCGCCCTGTTGACTCTGCCCTTGCCTTTGCAGGTGAGCACCTCTGCTTCCCATGTCAGTACTGTGGGTCCCTCTGACCCCGCGTGGACCTTACCCTGTGTCCTCTGA
Peptide sequence:
MSLQRECLGALLTLPLPLQVSTSASHVSTVGPSDPAWTLPCVL
IRESfinder result
IRESfinder score
0.624701892
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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