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mmu_circCnot1_275
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot1_275
mm39_Chr. Position ID:
chr8|96515257|96515532|-
Gene name:
Cnot1
Transcript:
ENSMUST00000098473.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
275
Exon/intron sizes in nt:
275
Flanking exon/introns:
chr8:96502014-96515257|chr8:96515532-96533960
Splice length:
275
Other database IDs:
circBase: mmu_circ_0015142, CIRCpedia: MMU_CIRCpedia_35173, circAtlas: mmu-Cnot1_0002
circBase: hsa_circ_0105679, circAtlas: hsa-CNOT1_0002, CIRCpedia: HSA_CIRCpedia_18079
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCATGTTTCAGAACAGAGTAAGACACTTGGTAAAGAAGAACTGAAGACATTTACAGATAACAGAGATAGCCTAATTACAAAGAAAGCATTAACCTGCCTCTGAGGTGACTAAAGGGGAATAATGGTGATTTTGCGCCGGGCTCGGCCGCCTGCTTCCGCCCCAACCAGCAATGAATCTTGACTCGCTCTCGCTGGCCTTGTCTCAAATCAGCTACCTGGTGGACAATTTAACCAAGAAAAACTACCGAGCCAGCCAGCAGGAAATACAGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTTGACTCGCTCTCGCTG
59.9
TCAGTTCTTCTTTACCAAGTGTCT
57.76
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTTGACTCGCTCTCGCTG
59.9
TGTCTTCAGTTCTTCTTTACCAAGTG
59.46
150
PCR template sequence:
GAATCTTGACTCGCTCTCGCTGGCCTTGTCTCAAATCAGCTACCTGGTGGACAATTTAACCAAGAAAAACTACCGAGCCAGCCAGCAGGAAATACAGCATGTGCCATGTTTCAGAACAGAGTAAGACACTTGGTAAAGAAGAACTGAAGACATTTACAGATAACAGAGATAGCCTAATTACAAAGAAAGCATTAACCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAATACAGCATGTGCCATGTTTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT1_275_ORF_1
1.0811
0.187251983
0.172122272
126
ORF sequence:
ATGAATCTTGACTCGCTCTCGCTGGCCTTGTCTCAAATCAGCTACCTGGTGGACAATTTAACCAAGAAAAACTACCGAGCCAGCCAGCAGGAAATACAGCATGTGCCATGTTTCAGAACAGAGTAA
Peptide sequence:
MNLDSLSLALSQISYLVDNLTKKNYRASQQEIQHVPCFRTE
IRESfinder result
IRESfinder score
0.72465151
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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