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mmu_circCdc14a_645
Basic information of circular RNA
PanCircBase ID:
mmu_circCdc14a_645
mm39_Chr. Position ID:
chr3|116087374|116092198|-
Gene name:
Cdc14a
Transcript:
ENSMUST00000106491.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,1025,3405,4711
Genomic length:
4824
Exon/intron sizes in nt:
361,123,48,113
Flanking exon/introns:
chr3:116068357-116087374|chr3:116092198-116101788
Splice length:
645
Other database IDs:
circAtlas: mmu-Cdc14a_0026
circBase: hsa_circ_0013330, circAtlas: hsa-CDC14A_0024, CIRCpedia: HSA_CIRCpedia_27018
Human Ortholog IDs:
Mature spliced Sequence:
AATAATTTTGAAGACGAAGATATGGAAATTAAGAACAACGTAACGCAGGGAGACAAACTACGTGCCTTAAAAAGCCAGAGGCATCCCCGCTCCTCGCCATCCTGTGCATTTAGGTCAGATGATATGAAAGGACACCAAAGGGCAATGGCCCAGACTTTCAGATTAAGTTCCTCACCGCAACCAACTATGTCGACCATGAAGACCTCCAAAGTGTGTTTGTCCCCTTCAGTGACAGCCAAAAAAATAAGCCGAGGTTCTTTGTCTTCAGGAGCAAATATAAGAAGCTTCTCCATAAATTCCCGGCTAGCCAGTTCTCTAGGGAACTTGAACGCCGGGACAGAAGAACCTGAGACCAAGAAGACCACATCACTCACCAAGGCCGCTTTCATAGCCAGCCCATTCACCAGCTTCTTGAATGGCAGCACCCAGACACCTGGCAGAAACTACCCTGAGCTCAACAACAACCAGTACACCAGAAGCAGCAACAGCAACAGCAGCAGCAGCAGCAGCGGTCTTGGGGGCAACCTGAACAGCTCTCCAGTCCCCCAGAGCGCCAAGCCCGAGGAGCACACCACCATCCTTCGACCTTCCTTCCCGGGGTCACTCTCTTCCTCCTCAGTGAGATTCCTGAGCCGTTCTATACCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCATCCTTCGACCTTCC
60.11
GGCACGTAGTTTGTCTCCCT
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCATCCTTCGACCTTCC
60.11
AGGCACGTAGTTTGTCTCCC
59.68
141
PCR template sequence:
CCAGAGCGCCAAGCCCGAGGAGCACACCACCATCCTTCGACCTTCCTTCCCGGGGTCACTCTCTTCCTCCTCAGTGAGATTCCTGAGCCGTTCTATACCTAATAATTTTGAAGACGAAGATATGGAAATTAAGAACAACGTAACGCAGGGAGACAAACTACGTGCCTTAAAAAGCCAGAGGCATCCCCGCTCCTCGCCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-146a-5p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGTTCTATACCTAATAATTTTGAAG
siRNA sets
AATTATTAGGTATAGAACG, AAATTATTAGGTATAGAAC, ATTATTAGGTATAGAACGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDC14A_645_ORF_1
0.7443
0.175731412
0.997494743
1269
ORF sequence:
ATGGAAATTAAGAACAACGTAACGCAGGGAGACAAACTACGTGCCTTAAAAAGCCAGAGGCATCCCCGCTCCTCGCCATCCTGTGCATTTAGGTCAGATGATATGAAAGGACACCAAAGGGCAATGGCCCAGACTTTCAGATTAAGTTCCTCACCGCAACCAACTATGTCGACCATGAAGACCTCCAAAGTGTGTTTGTCCCCTTCAGTGACAGCCAAAAAAATAAGCCGAGGTTCTTTGTCTTCAGGAGCAAATATAAGAAGCTTCTCCATAAATTCCCGGCTAGCCAGTTCTCTAGGGAACTTGAACGCCGGGACAGAAGAACCTGAGACCAAGAAGACCACATCACTCACCAAGGCCGCTTTCATAGCCAGCCCATTCACCAGCTTCTTGAATGGCAGCACCCAGACACCTGGCAGAAACTACCCTGAGCTCAACAACAACCAGTACACCAGAAGCAGCAACAGCAACAGCAGCAGCAGCAGCAGCGGTCTTGGGGGCAACCTGAACAGCTCTCCAGTCCCCCAGAGCGCCAAGCCCGAGGAGCACACCACCATCCTTCGACCTTCCTTCCCGGGGTCACTCTCTTCCTCCTCAGTGAGATTCCTGAGCCGTTCTATACCTAATAATTTTGAAGACGAAGATATGGAAATTAAGAACAACGTAACGCAGGGAGACAAACTACGTGCCTTAAAAAGCCAGAGGCATCCCCGCTCCTCGCCATCCTGTGCATTTAGGTCAGATGATATGAAAGGACACCAAAGGGCAATGGCCCAGACTTTCAGATTAAGTTCCTCACCGCAACCAACTATGTCGACCATGAAGACCTCCAAAGTGTGTTTGTCCCCTTCAGTGACAGCCAAAAAAATAAGCCGAGGTTCTTTGTCTTCAGGAGCAAATATAAGAAGCTTCTCCATAAATTCCCGGCTAGCCAGTTCTCTAGGGAACTTGAACGCCGGGACAGAAGAACCTGAGACCAAGAAGACCACATCACTCACCAAGGCCGCTTTCATAGCCAGCCCATTCACCAGCTTCTTGAATGGCAGCACCCAGACACCTGGCAGAAACTACCCTGAGCTCAACAACAACCAGTACACCAGAAGCAGCAACAGCAACAGCAGCAGCAGCAGCAGCGGTCTTGGGGGCAACCTGAACAGCTCTCCAGTCCCCCAGAGCGCCAAGCCCGAGGAGCACACCACCATCCTTCGACCTTCCTTCCCGGGGTCACTCTCTTCCTCCTCAGTGAGATTCCTGAGCCGTTCTATACCT
Peptide sequence:
MEIKNNVTQGDKLRALKSQRHPRSSPSCAFRSDDMKGHQRAMAQTFRLSSSPQPTMSTMKTSKVCLSPSVTAKKISRGSLSSGANIRSFSINSRLASSLGNLNAGTEEPETKKTTSLTKAAFIASPFTSFLNGSTQTPGRNYPELNNNQYTRSSNSNSSSSSSGLGGNLNSSPVPQSAKPEEHTTILRPSFPGSLSSSSVRFLSRSIPNNFEDEDMEIKNNVTQGDKLRALKSQRHPRSSPSCAFRSDDMKGHQRAMAQTFRLSSSPQPTMSTMKTSKVCLSPSVTAKKISRGSLSSGANIRSFSINSRLASSLGNLNAGTEEPETKKTTSLTKAAFIASPFTSFLNGSTQTPGRNYPELNNNQYTRSSNSNSSSSSSGLGGNLNSSPVPQSAKPEEHTTILRPSFPGSLSSSSVRFLSRSIP
IRESfinder result
IRESfinder score
0.571379039
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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