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mmu_circCcdc93_628
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc93_628
mm39_Chr. Position ID:
chr1|121403760|121418959|+
Gene name:
Ccdc93
Transcript:
ENSMUST00000036025.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,13,14,15,16,17,18,19
Exon/intron offsets:
0,1803,4783,5964,6569,7255,10571,15090
Genomic length:
15199
Exon/intron sizes in nt:
1,17,63,74,82,66,54,63,000
Flanking exon/introns:
chr1:121390914-121403760|chr1:121418959-121420633
Splice length:
628
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_157894
Human Ortholog IDs:
Mature spliced Sequence:
CAGTCTGAGCTGTCCGCTGAAGAAAGTCCAGAGAAGTTAGGAACCTCCCAGCTGCATCAGCGGAAAGTCATTTCCTTGAATAAGCAGATTCTGCAGAAGAGCAAACATCTGGAAGAGCTGCAAGCGAATCATACCAGCCTCAAAGCCAAGTACAGCGACAGGAAGAAGACACTGACAGAGTTGAAGGATCATGGTGAGAAACTAGACAAAGAGCAGGCAGCCCTGGAGAAATTAGAAGCCAAAGCCGACCCAAGCATGCTGCAGAACCTGAGAGCACTTGTAGCCATGAATGAAAGTCTGAAAAGCCAGGAGCAGGAGTTTAAGGCACACTGCCGGGAGGAGATGGCTCGGCTACAACAGGAAATTGAGACCCTGAAAGCTGAGAGAGCACCAGGTGAGAAGATCATCTCTGGTGGAGAGCCGCAGGGTGCCCTGACCTCCACCATGACTCACAATGAGGACCTGGACAGACGGTACAACATGGAAAAAGAGAAGCTGTACAAGATCCGGTTACTACAGGCACGAAGAAATCGAGAAATAGCAATTTTGCATCGCAAGATTGACGAAGTGCCCAGTCGAGCAGAGCTGATACAGTATCAGAAGCGATTTATTGAACTCTACCGTCAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAAGATTGACGAAGTGCC
60.18
ATGACTTTCCGCTGATGCAG
58.62
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAAGATTGACGAAGTGCC
60.18
AATGACTTTCCGCTGATGCAG
59.26
148
PCR template sequence:
AATCGAGAAATAGCAATTTTGCATCGCAAGATTGACGAAGTGCCCAGTCGAGCAGAGCTGATACAGTATCAGAAGCGATTTATTGAACTCTACCGTCAGACAGTCTGAGCTGTCCGCTGAAGAAAGTCCAGAGAAGTTAGGAACCTCCCAGCTGCATCAGCGGAAAGTCATTTCCTTGAATAAGCAGATTCTGCAGAAGA
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-34a-5p(1), mmu-miR-181b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTACCGTCAGACAGTCTGAGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC93_628_ORF_1
1.2
0.447328906
0.823094861
381
ORF sequence:
ATGCTGCAGAACCTGAGAGCACTTGTAGCCATGAATGAAAGTCTGAAAAGCCAGGAGCAGGAGTTTAAGGCACACTGCCGGGAGGAGATGGCTCGGCTACAACAGGAAATTGAGACCCTGAAAGCTGAGAGAGCACCAGGTGAGAAGATCATCTCTGGTGGAGAGCCGCAGGGTGCCCTGACCTCCACCATGACTCACAATGAGGACCTGGACAGACGGTACAACATGGAAAAAGAGAAGCTGTACAAGATCCGGTTACTACAGGCACGAAGAAATCGAGAAATAGCAATTTTGCATCGCAAGATTGACGAAGTGCCCAGTCGAGCAGAGCTGATACAGTATCAGAAGCGATTTATTGAACTCTACCGTCAGACAGTCTGA
Peptide sequence:
MLQNLRALVAMNESLKSQEQEFKAHCREEMARLQQEIETLKAERAPGEKIISGGEPQGALTSTMTHNEDLDRRYNMEKEKLYKIRLLQARRNREIAILHRKIDEVPSRAELIQYQKRFIELYRQTV
IRESfinder result
IRESfinder score
0.358756511
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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