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mmu_circEml6_852
Basic information of circular RNA
PanCircBase ID:
mmu_circEml6_852
mm39_Chr. Position ID:
chr11|29804050|29856331|-
Gene name:
Eml6
Transcript:
ENSMUST00000058902.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,26596,27907,39137,43093,52121
Genomic length:
52281
Exon/intron sizes in nt:
2,02,13,61,86,69,99,160
Flanking exon/introns:
chr11:29800955-29804050|chr11:29856331-29974379
Splice length:
852
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218621, circAtlas: mmu-Eml6_0026
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCTTGCCTTACACCCAGATAAAACTCTGATTGCAACTGGCCAGGTTGGGAAGGAGCCATATATATGCATATGGAATTCCTATAATGTCCATACTGTGTCTATTCTTAAAGATGTCCATACACACGGAGTTGCATGCCTGGCTTTTGACTCGGATGGACAGCATTTAGCCTCTGTGGGATTAGATGCCAAAAACACAGTCTGCATTTGGGACTGGAGAAAGGGAAAACTTCTGGCCTCAGCTACTGGCCATTCTGACCGGATTTTTGATATTTCCTGGGATCCATATCAGCCAAACAGAATGGTTAGCTGCGGAGTGAAGCATATAAAGTTTTGGACACTATGTGGAAATGCCCTGACTGCAAAAAGAGGCATATTTGGCAAAACAGGAGATCTTCAGACTATCCTTTGCCTTGCATGTGCCAAAGAAGACATCACTTACTCTGGTGCTTTAAACGGTGACATCTATGTCTGGAAAGGGCTCACCTTAGTCCGCACTATTCAAGGAGCACATAGTGCTGGGATCTTCAGCCTGTATGCTTGTGAAGAAGGCTTTGCTACTGGTGGGCGAGATGGTTGCATACGATTATGGGACACTGATTTCAAACCAATAACCAAAATTGATCTCAGGGAGACGGAACAAGGATATAAAGGCCTCTCTATTCGGAGTGTGTGCTGGAAAGCTGACCGCCTTCTAGCAGGAACCCAGGACAGTGAGATATTTGAAGTCATTGTTCGAGAGCGAGATAAGCCAATGCTCATTCTTCAGGGCCACTGCGAGGGGGAACTGTGGGCTCTGGCATTGCACCCCAAGAAACCTCTGGCTGTGACAGGCAGTGATGACCGCTCTGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCATTCTTCAGGGCCACT
60.03
CAACCTGGCCAGTTGCAATC
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCATTCTTCAGGGCCACT
60.03
TGGCCAGTTGCAATCAGAGT
59.89
141
PCR template sequence:
TGCTCATTCTTCAGGGCCACTGCGAGGGGGAACTGTGGGCTCTGGCATTGCACCCCAAGAAACCTCTGGCTGTGACAGGCAGTGATGACCGCTCTGTCAGCCTTGCCTTACACCCAGATAAAACTCTGATTGCAACTGGCCAGGTTGGGAAGGAGCCATATATATGCATATGGAATTCCTATAATGTCCATACTGTGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1), mmu-miR-680(1), mmu-miR-129-5p(1), mmu-miR-300-3p(1), mmu-miR-673-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCGCTCTGTCAGCCTTGCCTTACAC
siRNA sets
TAAGGCAAGGCTGACAGAG, AAGGCAAGGCTGACAGAGC, GTAAGGCAAGGCTGACAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML6_852_ORF_1
0.9748
0.098285249
0.999144883
1404
ORF sequence:
ATGGTTAGCTGCGGAGTGAAGCATATAAAGTTTTGGACACTATGTGGAAATGCCCTGACTGCAAAAAGAGGCATATTTGGCAAAACAGGAGATCTTCAGACTATCCTTTGCCTTGCATGTGCCAAAGAAGACATCACTTACTCTGGTGCTTTAAACGGTGACATCTATGTCTGGAAAGGGCTCACCTTAGTCCGCACTATTCAAGGAGCACATAGTGCTGGGATCTTCAGCCTGTATGCTTGTGAAGAAGGCTTTGCTACTGGTGGGCGAGATGGTTGCATACGATTATGGGACACTGATTTCAAACCAATAACCAAAATTGATCTCAGGGAGACGGAACAAGGATATAAAGGCCTCTCTATTCGGAGTGTGTGCTGGAAAGCTGACCGCCTTCTAGCAGGAACCCAGGACAGTGAGATATTTGAAGTCATTGTTCGAGAGCGAGATAAGCCAATGCTCATTCTTCAGGGCCACTGCGAGGGGGAACTGTGGGCTCTGGCATTGCACCCCAAGAAACCTCTGGCTGTGACAGGCAGTGATGACCGCTCTGTCAGCCTTGCCTTACACCCAGATAAAACTCTGATTGCAACTGGCCAGGTTGGGAAGGAGCCATATATATGCATATGGAATTCCTATAATGTCCATACTGTGTCTATTCTTAAAGATGTCCATACACACGGAGTTGCATGCCTGGCTTTTGACTCGGATGGACAGCATTTAGCCTCTGTGGGATTAGATGCCAAAAACACAGTCTGCATTTGGGACTGGAGAAAGGGAAAACTTCTGGCCTCAGCTACTGGCCATTCTGACCGGATTTTTGATATTTCCTGGGATCCATATCAGCCAAACAGAATGGTTAGCTGCGGAGTGAAGCATATAAAGTTTTGGACACTATGTGGAAATGCCCTGACTGCAAAAAGAGGCATATTTGGCAAAACAGGAGATCTTCAGACTATCCTTTGCCTTGCATGTGCCAAAGAAGACATCACTTACTCTGGTGCTTTAAACGGTGACATCTATGTCTGGAAAGGGCTCACCTTAGTCCGCACTATTCAAGGAGCACATAGTGCTGGGATCTTCAGCCTGTATGCTTGTGAAGAAGGCTTTGCTACTGGTGGGCGAGATGGTTGCATACGATTATGGGACACTGATTTCAAACCAATAACCAAAATTGATCTCAGGGAGACGGAACAAGGATATAAAGGCCTCTCTATTCGGAGTGTGTGCTGGAAAGCTGACCGCCTTCTAGCAGGAACCCAGGACAGTGAGATATTTGAAGTCATTGTTCGAGAGCGAGATAAGCCAATGCTCATTCTTCAGGGCCACTGCGAGGGGGAACTGTGGGCTCTGGCATTGCACCCCAAGAAACCTCTGGCTGTGACAGGCAGTGATGACCGCTCTGTC
Peptide sequence:
MVSCGVKHIKFWTLCGNALTAKRGIFGKTGDLQTILCLACAKEDITYSGALNGDIYVWKGLTLVRTIQGAHSAGIFSLYACEEGFATGGRDGCIRLWDTDFKPITKIDLRETEQGYKGLSIRSVCWKADRLLAGTQDSEIFEVIVRERDKPMLILQGHCEGELWALALHPKKPLAVTGSDDRSVSLALHPDKTLIATGQVGKEPYICIWNSYNVHTVSILKDVHTHGVACLAFDSDGQHLASVGLDAKNTVCIWDWRKGKLLASATGHSDRIFDISWDPYQPNRMVSCGVKHIKFWTLCGNALTAKRGIFGKTGDLQTILCLACAKEDITYSGALNGDIYVWKGLTLVRTIQGAHSAGIFSLYACEEGFATGGRDGCIRLWDTDFKPITKIDLRETEQGYKGLSIRSVCWKADRLLAGTQDSEIFEVIVRERDKPMLILQGHCEGELWALALHPKKPLAVTGSDDRSV
IRESfinder result
IRESfinder score
0.474677618
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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