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mmu_circCelf1_535
Basic information of circular RNA
PanCircBase ID:
mmu_circCelf1_535
mm39_Chr. Position ID:
chr2|90828924|90834235|+
Gene name:
Celf1
Transcript:
ENSMUST00000005643.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,2426,2882,4631,5231
Genomic length:
5311
Exon/intron sizes in nt:
188,83,49,135,80
Flanking exon/introns:
chr2:90818161-90828924|chr2:90834235-90835045
Splice length:
535
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33937, circAtlas: mmu-Celf1_0002
circBase: hsa_circ_0022005, circAtlas: hsa-CELF1_0003, CIRCpedia: HSA_CIRCpedia_4592
Human Ortholog IDs:
Mature spliced Sequence:
CTCAAAGAAAATGAACGGCACCCTGGACCACCCAGACCAACCAGATCTTGATGCTATCAAGATGTTTGTGGGCCAGGTTCCAAGGACCTGGTCTGAGAAAGACTTGAGGGAGCTTTTTGAGCAGTATGGTGCTGTCTATGAAATCAACATCCTAAGGGATAGGAGCCAAAACCCTCCTCAGAGCAAAGGGTGCTGTTTTGTTACATTTTACACCCGTAAAGCTGCATTAGAAGCTCAGAATGCTCTCCATAACATGAAGGTCCTCCCTGGGATGCATCACCCTATACAGATGAAGCCTGCTGACAGTGAAAAGAACAATGCTGTGGAAGACAGGAAGCTCTTTATTGGTATGATTTCCAAGAAGTGTACTGAAAATGACATCCGAGTCATGTTTTCTTCGTTTGGACAGATTGAAGAGTGCCGGATATTGCGGGGACCTGATGGCTTGAGCAGAGGTTGTGCATTTGTGACTTTTACTACAAGAACCATGGCACAGACAGCTATCAAAGCAATGCACCAAGCACAAACCATGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGATGGCTTGAGCAGAGGT
59.75
GATCTGGTTGGTCTGGGTGG
60.04
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGATGGCTTGAGCAGAG
59.75
GATCTGGTTGGTCTGGGTGG
60.04
147
PCR template sequence:
ACCTGATGGCTTGAGCAGAGGTTGTGCATTTGTGACTTTTACTACAAGAACCATGGCACAGACAGCTATCAAAGCAATGCACCAAGCACAAACCATGGAGCTCAAAGAAAATGAACGGCACCCTGGACCACCCAGACCAACCAGATCTTGATGCTATCAAGATGTTTGTGGGCCAGGTTCCAAGGACCTGGTCTGAGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-29a-3p(1), mmu-miR-324-5p(1), mmu-miR-218-5p(1), mmu-miR-362-5p(1), mmu-miR-224-5p(1), mmu-miR-350-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAACCATGGAGCTCAAAGAAAATG
siRNA sets
ATTTTCTTTGAGCTCCATG,TTTGAGCTCCATGGTTTGT,TTTTCTTTGAGCTCCATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCELF1_535_ORF_1
0.9756
0.150860641
0.789106928
576
ORF sequence:
ATGAACGGCACCCTGGACCACCCAGACCAACCAGATCTTGATGCTATCAAGATGTTTGTGGGCCAGGTTCCAAGGACCTGGTCTGAGAAAGACTTGAGGGAGCTTTTTGAGCAGTATGGTGCTGTCTATGAAATCAACATCCTAAGGGATAGGAGCCAAAACCCTCCTCAGAGCAAAGGGTGCTGTTTTGTTACATTTTACACCCGTAAAGCTGCATTAGAAGCTCAGAATGCTCTCCATAACATGAAGGTCCTCCCTGGGATGCATCACCCTATACAGATGAAGCCTGCTGACAGTGAAAAGAACAATGCTGTGGAAGACAGGAAGCTCTTTATTGGTATGATTTCCAAGAAGTGTACTGAAAATGACATCCGAGTCATGTTTTCTTCGTTTGGACAGATTGAAGAGTGCCGGATATTGCGGGGACCTGATGGCTTGAGCAGAGGTTGTGCATTTGTGACTTTTACTACAAGAACCATGGCACAGACAGCTATCAAAGCAATGCACCAAGCACAAACCATGGAGCTCAAAGAAAATGAACGGCACCCTGGACCACCCAGACCAACCAGATCTTGA
Peptide sequence:
MNGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINILRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRTMAQTAIKAMHQAQTMELKENERHPGPPRPTRS
IRESfinder result
IRESfinder score
0.511056077
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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