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mmu_circMcm4_363
Basic information of circular RNA
PanCircBase ID:
mmu_circMcm4_363
mm39_Chr. Position ID:
chr16|15443425|15444128|-
Gene name:
Mcm4
Transcript:
ENSMUST00000023353.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
15,14
Exon/intron offsets:
0,474
Genomic length:
703
Exon/intron sizes in nt:
134,229
Flanking exon/introns:
chr16:15442633-15443425|chr16:15444128-15445512
Splice length:
363
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10724, circAtlas: mmu-Mcm4_0001
circBase: hsa_circ_0084486, CIRCpedia: HSA_CIRCpedia_89254
Human Ortholog IDs:
Mature spliced Sequence:
GCTTATGTAAACATGAGGAAGATTGGGAGTAGCCGGGGGATGGTTTCTGCTTACCCTCGACAGCTAGAGTCATTAATTCGCTTAGCAGAAGCCCATGCTAAAGTAAGATTTTCAAACAAAGTTGAAGCAATTGATGTGGAAGAGGCAAAACGCCTCCACCGGGAGGCTCTGAAGCAGTCTGCAACTGACCCTCGTACTGGCATTGTGGATATTTCTATTCTTACTACAGGAATGAGTGCCACTTCTCGTAAACGGAAAGAAGAATTAGCTGAAGCATTGAGAAAACTTATTTTATCTAAGGGTAAAACACCAGCCTTAAAGTACCAACAGCTGTTTGAGGATATTCGGGGACAGTCTGACACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTACCAACAGCTGTTTGAGGA
59.56
ATGGGCTTCTGCTAAGCGAA
59.75
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCCTTAAAGTACCAACAGC
59.51
TGGGCTTCTGCTAAGCGAAT
59.75
149
PCR template sequence:
ATTAGCTGAAGCATTGAGAAAACTTATTTTATCTAAGGGTAAAACACCAGCCTTAAAGTACCAACAGCTGTTTGAGGATATTCGGGGACAGTCTGACACAGCTTATGTAAACATGAGGAAGATTGGGAGTAGCCGGGGGATGGTTTCTGCTTACCCTCGACAGCTAGAGTCATTAATTCGCTTAGCAGAAGCCCATGCTA
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-138-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTCTGACACAGCTTATGTAAACA
siRNA sets
TTTACATAAGCTGTGTCAG, TTACATAAGCTGTGTCAGA, TACATAAGCTGTGTCAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMCM4_363_ORF_1
1.1153
0.162767074
0.932888233
714
ORF sequence:
ATGAGGAAGATTGGGAGTAGCCGGGGGATGGTTTCTGCTTACCCTCGACAGCTAGAGTCATTAATTCGCTTAGCAGAAGCCCATGCTAAAGTAAGATTTTCAAACAAAGTTGAAGCAATTGATGTGGAAGAGGCAAAACGCCTCCACCGGGAGGCTCTGAAGCAGTCTGCAACTGACCCTCGTACTGGCATTGTGGATATTTCTATTCTTACTACAGGAATGAGTGCCACTTCTCGTAAACGGAAAGAAGAATTAGCTGAAGCATTGAGAAAACTTATTTTATCTAAGGGTAAAACACCAGCCTTAAAGTACCAACAGCTGTTTGAGGATATTCGGGGACAGTCTGACACAGCTTATGTAAACATGAGGAAGATTGGGAGTAGCCGGGGGATGGTTTCTGCTTACCCTCGACAGCTAGAGTCATTAATTCGCTTAGCAGAAGCCCATGCTAAAGTAAGATTTTCAAACAAAGTTGAAGCAATTGATGTGGAAGAGGCAAAACGCCTCCACCGGGAGGCTCTGAAGCAGTCTGCAACTGACCCTCGTACTGGCATTGTGGATATTTCTATTCTTACTACAGGAATGAGTGCCACTTCTCGTAAACGGAAAGAAGAATTAGCTGAAGCATTGAGAAAACTTATTTTATCTAAGGGTAAAACACCAGCCTTAAAGTACCAACAGCTGTTTGAGGATATTCGGGGACAGTCTGACACA
Peptide sequence:
MRKIGSSRGMVSAYPRQLESLIRLAEAHAKVRFSNKVEAIDVEEAKRLHREALKQSATDPRTGIVDISILTTGMSATSRKRKEELAEALRKLILSKGKTPALKYQQLFEDIRGQSDTAYVNMRKIGSSRGMVSAYPRQLESLIRLAEAHAKVRFSNKVEAIDVEEAKRLHREALKQSATDPRTGIVDISILTTGMSATSRKRKEELAEALRKLILSKGKTPALKYQQLFEDIRGQSDT
IRESfinder result
IRESfinder score
0.669974456
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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