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mmu_circRif1_511
Basic information of circular RNA
PanCircBase ID:
mmu_circRif1_511
mm39_Chr. Position ID:
chr2|51993444|51995649|+
Gene name:
Rif1
Transcript:
ENSMUST00000112693.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
22,23,24
Exon/intron offsets:
0,1113,2002
Genomic length:
2205
Exon/intron sizes in nt:
2,65,43,203
Flanking exon/introns:
chr2:51988964-51993444|chr2:51995649-51996912
Splice length:
511
Other database IDs:
CIRCpedia: HSA_CIRCpedia_38111
Human Ortholog IDs:
Mature spliced Sequence:
CACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAAGCTAATTGTGAAAGTCATCGATACTTTCCACACTCTAAGCCTCAAGGAAACATTCTCTGATACACTGCTTGCTATTGGTAACTCTATCATTAGCATGCTTTCCAATGTATTTGGACATATTTCCTTGCCCTCTATGATCCGAGAAATATTTGCAACTTTTACAAGACCTCTGGCTTTACTGTATGAAAACTCAAAGCTGGATGAGGCTCCTAAAGTGTATACTAGTCTGAACAACAAGTTAGAAAAGCTATTGGGAGAAATTGTTGCATGCCTACAGTTCAGCTATCTTGGAGCCTATGACAGTGAACTTCTTGAACATCTTTCTCCACTCCTGTGCGTAATATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGATTCGGAAACAGAGTGCT
59.96
AGCCAATTTCCCTAGAGGCT
58.4
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGATTCGGAAACAGAGTGC
58.58
AGCCAATTTCCCTAGAGGCT
58.4
140
PCR template sequence:
TATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAACACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAAGCTAATTGTGAAAGTCATCGATACTTTCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAGGAATTAAACACCGCAGAGATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIF1_511_ORF_1
0.8406
0.020215023
0.35161807
417
ORF sequence:
ATGCTTTCCAATGTATTTGGACATATTTCCTTGCCCTCTATGATCCGAGAAATATTTGCAACTTTTACAAGACCTCTGGCTTTACTGTATGAAAACTCAAAGCTGGATGAGGCTCCTAAAGTGTATACTAGTCTGAACAACAAGTTAGAAAAGCTATTGGGAGAAATTGTTGCATGCCTACAGTTCAGCTATCTTGGAGCCTATGACAGTGAACTTCTTGAACATCTTTCTCCACTCCTGTGCGTAATATTTCTTCACAAGAATAAACAGATTCGGAAACAGAGTGCTCTGTTGTGGAATGCCACATTTGCTAAAGCGACAGCTCTGGTTTATCCTGAGGAATTAAACACCGCAGAGATCTTCAGATTGGTCCAGAAAGAAGAAGGAGCCTCTAGGGAAATTGGCTTCTTTATTTAA
Peptide sequence:
MLSNVFGHISLPSMIREIFATFTRPLALLYENSKLDEAPKVYTSLNNKLEKLLGEIVACLQFSYLGAYDSELLEHLSPLLCVIFLHKNKQIRKQSALLWNATFAKATALVYPEELNTAEIFRLVQKEEGASREIGFFI
IRESfinder result
IRESfinder score
0.778458188
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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