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mmu_circCul4b_298
Basic information of circular RNA
PanCircBase ID:
mmu_circCul4b_298
mm39_Chr. Position ID:
chrX|37634372|37635761|-
Gene name:
Cul4b
Transcript:
ENSMUST00000016681.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,11
Exon/intron offsets:
0,1196
Genomic length:
1389
Exon/intron sizes in nt:
1,05,193
Flanking exon/introns:
chrX:37633736-37634372|chrX:37635761-37636723
Splice length:
298
Other database IDs:
circAtlas: mmu-Cul4b_0004
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTTGGAAGTACCATTGTTATTAATCCTGAAAAAGATAAAACTATGGTTCAAGAATTATTGGACTTTAAAGATAAAGTTGACCATATAATTGATACCTGCTTTCTGAAAAATGAAAAATTTATCAATGCCATGAAAGAAGCTTTTGAAACATTCATTAATAAAAGACCAAATAAGCCAGCTGAACTGATAGCTAAGTATGTGGATTCAAAACTTCGTGCAGGCAACAAAGAAGCTACAGATGAAGAGCTTGAGAAAATGTTGGATAAAATAATGATTATATTTAGATTTATCTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTCGTGCAGGCAACAAAG
59.62
AGTCCAATAATTCTTGAACCATAGT
56.26
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCAGGCAACAAAGAAGCT
59.61
AGTCCAATAATTCTTGAACCATAGT
56.26
148
PCR template sequence:
TATGTGGATTCAAAACTTCGTGCAGGCAACAAAGAAGCTACAGATGAAGAGCTTGAGAAAATGTTGGATAAAATAATGATTATATTTAGATTTATCTATGGCTTTTGGAAGTACCATTGTTATTAATCCTGAAAAAGATAAAACTATGGTTCAAGAATTATTGGACTTTAAAGATAAAGTTGACCATATAATTGATACCT
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-434-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATTTATCTATGGCTTTTGGAAGTA
siRNA sets
TACTTCCAAAAGCCATAGA, AAAAGCCATAGATAAATCT, CAAAAGCCATAGATAAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCUL4B_298_ORF_1
0.9676
0.049294032
0.251389414
300
ORF sequence:
ATGGCTTTTGGAAGTACCATTGTTATTAATCCTGAAAAAGATAAAACTATGGTTCAAGAATTATTGGACTTTAAAGATAAAGTTGACCATATAATTGATACCTGCTTTCTGAAAAATGAAAAATTTATCAATGCCATGAAAGAAGCTTTTGAAACATTCATTAATAAAAGACCAAATAAGCCAGCTGAACTGATAGCTAAGTATGTGGATTCAAAACTTCGTGCAGGCAACAAAGAAGCTACAGATGAAGAGCTTGAGAAAATGTTGGATAAAATAATGATTATATTTAGATTTATCTAT
Peptide sequence:
MAFGSTIVINPEKDKTMVQELLDFKDKVDHIIDTCFLKNEKFINAMKEAFETFINKRPNKPAELIAKYVDSKLRAGNKEATDEELEKMLDKIMIIFRFIY
IRESfinder result
IRESfinder score
0.793307754
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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