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mmu_circEml4_303
Basic information of circular RNA
PanCircBase ID:
mmu_circEml4_303
mm39_Chr. Position ID:
chr17|83732686|83734780|+
Gene name:
Eml4
Transcript:
ENSMUST00000096766.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,1965
Genomic length:
2094
Exon/intron sizes in nt:
1,74,129
Flanking exon/introns:
chr17:83729164-83732686|chr17:83734780-83735428
Splice length:
303
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31296
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_366512
Human Ortholog IDs:
Mature spliced Sequence:
TGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAAAATTCAGATGATAGTCGT
58.01
GCTCGAATTTGTGGGCTCTG
59.55
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGGTTTCAACATCAAAACT
55.59
GTGACGCTCGAATTTGTGGG
59.83
147
PCR template sequence:
CACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAATGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCT
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-335-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAATGCAGACAATGGTACAGAAAAA
siRNA sets
TTTCTGTACCATTGTCTGC, TTTTTCTGTACCATTGTCT, TTTTCTGTACCATTGTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML4_303_ORF_1
0.8783
-0.077057427
0.203788543
357
ORF sequence:
ATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAATGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGAC
Peptide sequence:
MKTVSTSKLISKVIKNADNGTEKKKEKPQGQREKKEDSHSNDQSPQIRASPSPQPSSQPLQINRQTPESKSSAPIKSIKRPPTAEKSHNSWENSDDSRNKLMKTVSTSKLISKVIKNAD
IRESfinder result
IRESfinder score
0.654140816
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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