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mmu_circCbx1_599
Basic information of circular RNA
PanCircBase ID:
mmu_circCbx1_599
mm39_Chr. Position ID:
chr11|96691596|96697590|+
Gene name:
Cbx1
Transcript:
ENSMUST00000093943.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,658,1957,5845
Genomic length:
5994
Exon/intron sizes in nt:
17,71,78,95,149
Flanking exon/introns:
chr11:96680179-96691596|chr11:96697590-96699009
Splice length:
599
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAGTGTCACCCTTCACACCAGAAAGCTGGCGGGTACTATGGGGAAAAAGCAAAACAAGAAGAAAGTGGAGGAGGTACTAGAAGAAGAGGAAGAGGAATATGTGGTGGAAAAAGTTCTTGATCGGCGAGTTGTCAAGGGCAAGGTGGAATATCTTCTAAAGTGGAAGGGTTTCTCAGATGAGGACAACACTTGGGAGCCAGAAGAGAATCTGGATTGCCCTGACCTTATTGCTGAGTTTCTACAGTCACAGAAAACAGCTCATGAGACAGATAAGTCAGAGGGAGGCAAGCGCAAAGCTGATTCTGATTCTGAAGATAAAGGAGAGGAAAGCAAACCAAAGAAGAAGAAAGAAGAGTCAGAAAAGCCACGAGGCTTTGCCCGGGGTTTGGAGCCAGAGCGGATTATTGGAGCTACTGACTCCAGTGGAGAGCTCATGTTCCTGATGAAATGGAAAAACTCTGATGAGGCTGACCTGGTCCCTGCCAAGGAAGCCAATGTCAAGTGCCCACAGGTTGTCATATCCTTCTATGAGGAAAGGCTAACGTGGCATTCCTACCCCTCAGAGGATGATGACAAAAAAGACGACAAGAATTAGCCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGCCCACAGGTTGTCAT
59.81
CCATAGTACCCGCCAGCTTT
59.82
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGCCCACAGGTTGTCAT
59.81
TTTTCCCCATAGTACCCGCC
59.45
147
PCR template sequence:
AAGTGCCCACAGGTTGTCATATCCTTCTATGAGGAAAGGCTAACGTGGCATTCCTACCCCTCAGAGGATGATGACAAAAAAGACGACAAGAATTAGCCCTCAGTGTCACCCTTCACACCAGAAAGCTGGCGGGTACTATGGGGAAAAAGCAAAACAAGAAGAAAGTGGAGGAGGTACTAGAAGAAGAGGAAGAGGAATAT
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-149-5p(2), mmu-miR-150-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAATTAGCCCTCAGTGTCACCCTT
siRNA sets
AAGGGTGACACTGAGGGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCBX1_599_ORF_5
1.1667
-0.171993399
0.062941215
153
ORF sequence:
ATGATGACAAAAAAGACGACAAGAATTAGCCCTCAGTGTCACCCTTCACACCAGAAAGCTGGCGGGTACTATGGGGAAAAAGCAAAACAAGAAGAAAGTGGAGGAGGTACTAGAAGAAGAGGAAGAGGAATATGTGGTGGAAAAAGTTCTTGA
Peptide sequence:
MMTKKTTRISPQCHPSHQKAGGYYGEKAKQEESGGGTRRRGRGICGGKSS
IRESfinder result
IRESfinder score
0.342345945
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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