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mmu_circCep120_433
Basic information of circular RNA
PanCircBase ID:
mmu_circCep120_433
mm39_Chr. Position ID:
chr18|53847835|53851701|-
Gene name:
Cep120
Transcript:
ENSMUST00000049811.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,236,3683
Genomic length:
3866
Exon/intron sizes in nt:
1,53,97,183
Flanking exon/introns:
chr18:53846543-53847835|chr18:53851701-53852287
Splice length:
433
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATTCCTCTGCTGGTGGAGTTATGGCACAAGGATAAAATGAGTAAAGATTTACTCCTTGGGGTCGCAAGAATCCAGCTTTCTAATATCTTGTCTTCAGAAAAGACCCGGTTTTTAGGTGCTAATGGTGAGCAGTGCTGGCGACAGACGTACAGTGAGAGCGTGCCTGTGATAGCAGCCCAGGGGTCAAATAACAGGATATTAGACCTTTCTTATACAATGACACTGGAAGACTATGGCCTAGTGAAAATGCGTGAGATCTTTGTATCGGAGTCATCTCAGGGTGTGCCTGCTGTGGATCAGAAGCCATCTTCGCCTCCTCCCGCTCCCTGCCCTTCTGAGATCCAGATGGAACCCAGAGAGACCTTAGAGTACAAGGCTGCCCTCGAGCTGGAGATGTGGAAAGAGATGCAGGAAGACATATTTGAAAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTAGAGTACAAGGCTGCCC
60.13
ATTCTTGCGACCCCAAGGAG
60.04
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTAGAGTACAAGGCTGCCC
60.13
GATTCTTGCGACCCCAAGGA
60.04
144
PCR template sequence:
TTCTGAGATCCAGATGGAACCCAGAGAGACCTTAGAGTACAAGGCTGCCCTCGAGCTGGAGATGTGGAAAGAGATGCAGGAAGACATATTTGAAAGTCAGGATTCCTCTGCTGGTGGAGTTATGGCACAAGGATAAAATGAGTAAAGATTTACTCCTTGGGGTCGCAAGAATCCAGCTTTCTAATATCTTGTCTTCAGAA
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-135a-5p(1), mmu-miR-320-3p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-666-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTGAAAGTCAGGATTCCTCTGCTG
siRNA sets
AGAGGAATCCTGACTTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP120_433_ORF_1
0.8412
0.161746433
0.519920419
432
ORF sequence:
ATGAGTAAAGATTTACTCCTTGGGGTCGCAAGAATCCAGCTTTCTAATATCTTGTCTTCAGAAAAGACCCGGTTTTTAGGTGCTAATGGTGAGCAGTGCTGGCGACAGACGTACAGTGAGAGCGTGCCTGTGATAGCAGCCCAGGGGTCAAATAACAGGATATTAGACCTTTCTTATACAATGACACTGGAAGACTATGGCCTAGTGAAAATGCGTGAGATCTTTGTATCGGAGTCATCTCAGGGTGTGCCTGCTGTGGATCAGAAGCCATCTTCGCCTCCTCCCGCTCCCTGCCCTTCTGAGATCCAGATGGAACCCAGAGAGACCTTAGAGTACAAGGCTGCCCTCGAGCTGGAGATGTGGAAAGAGATGCAGGAAGACATATTTGAAAGTCAGGATTCCTCTGCTGGTGGAGTTATGGCACAAGGATAA
Peptide sequence:
MSKDLLLGVARIQLSNILSSEKTRFLGANGEQCWRQTYSESVPVIAAQGSNNRILDLSYTMTLEDYGLVKMREIFVSESSQGVPAVDQKPSSPPPAPCPSEIQMEPRETLEYKAALELEMWKEMQEDIFESQDSSAGGVMAQG
IRESfinder result
IRESfinder score
0.477246402
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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