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mmu_circCdc123_294
Basic information of circular RNA
PanCircBase ID:
mmu_circCdc123_294
mm39_Chr. Position ID:
chr2|5826086|5838524|-
Gene name:
Cdc123
Transcript:
ENSMUST00000043864.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1826,11805,12380
Genomic length:
12438
Exon/intron sizes in nt:
107,96,33,58
Flanking exon/introns:
chr2:5815655-5826086|chr2:5838524-5846763
Splice length:
294
Other database IDs:
circAtlas: mmu-Cdc123_0019
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_706
Human Ortholog IDs:
Mature spliced Sequence:
GGAAGATCCGCCAACATGCTCCCAGTCAGACAGTGGTAACGAAGCAGAGGAAACACAGTGGTCCGATGATGAGAGCACAGCCACACTTACGGCACCAGAGTTTCCTGAGTTCAACACTCAAGTCCAAGAAGCTATCAATTCGCTGGGGGGTAGTGTCTTCCCTAAGCTTAACTGGAGTGCCCCAAGGGATGCGTACTGGATAGCGATGAACAGTTCCCTGAAGTGTAAAACTCTCAGTGATATCTTCCTGCTTTTCAAGAGTTCTGATTTCATCACCCATGACTTCACACAGCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGATGAACAGTTCCCTGA
59.02
AGTGTGGCTGTGCTCTCATC
60.04
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGATGAACAGTTCCCTGA
59.02
GCTGTGCTCTCATCATCGGA
59.9
174
PCR template sequence:
ACTGGATAGCGATGAACAGTTCCCTGAAGTGTAAAACTCTCAGTGATATCTTCCTGCTTTTCAAGAGTTCTGATTTCATCACCCATGACTTCACACAGCCGGAAGATCCGCCAACATGCTCCCAGTCAGACAGTGGTAACGAAGCAGAGGAAACACAGTGGTCCGATGATGAGAGCACAGCCACACTTACGGCACCAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCACACAGCCGGAAGATCCGCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDC123_294_ORF_1
0.9556
0.264897253
0.587265628
381
ORF sequence:
ATGAACAGTTCCCTGAAGTGTAAAACTCTCAGTGATATCTTCCTGCTTTTCAAGAGTTCTGATTTCATCACCCATGACTTCACACAGCCGGAAGATCCGCCAACATGCTCCCAGTCAGACAGTGGTAACGAAGCAGAGGAAACACAGTGGTCCGATGATGAGAGCACAGCCACACTTACGGCACCAGAGTTTCCTGAGTTCAACACTCAAGTCCAAGAAGCTATCAATTCGCTGGGGGGTAGTGTCTTCCCTAAGCTTAACTGGAGTGCCCCAAGGGATGCGTACTGGATAGCGATGAACAGTTCCCTGAAGTGTAAAACTCTCAGTGATATCTTCCTGCTTTTCAAGAGTTCTGATTTCATCACCCATGACTTCACACAG
Peptide sequence:
MNSSLKCKTLSDIFLLFKSSDFITHDFTQPEDPPTCSQSDSGNEAEETQWSDDESTATLTAPEFPEFNTQVQEAINSLGGSVFPKLNWSAPRDAYWIAMNSSLKCKTLSDIFLLFKSSDFITHDFTQ
IRESfinder result
IRESfinder score
0.619524223
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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