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mmu_circEftud2_1176
Basic information of circular RNA
PanCircBase ID:
mmu_circEftud2_1176
mm39_Chr. Position ID:
chr11|102734175|102750952|-
Gene name:
Eftud2
Transcript:
ENSMUST00000021306.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,790,2746,3235,4608,5834,8407,11429,11874,16652
Genomic length:
16777
Exon/intron sizes in nt:
83,10,21,41,11,21,94,10,00,00,00,00,000
Flanking exon/introns:
chr11:102732594-102734175|chr11:102750952-102753436
Splice length:
1176
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CATGTATTCCACCGACGAGAACCTGATCCTTTCTCCACTCCTGGGCAACGTCTGCTTCTCCAGTTCCCAGTACAGCATCTGCTTCACACTGGGTTCCTTTGCCAAGATCTACGCTGACACCTTTGGTGACATTAATTACCAGGAATTTGCTAAAAGACTCTGGGGTGACATCTACTTCAATCCTAAGACGAGAAAGTTCACCAAAAAGGCTCCCAGCAGCAGCTCCCAGAGGAGCTTCGTGGAGTTCATCTTGGAGCCACTCTATAAGATCCTGGCCCAGGTGGTGGGTGATGTGGACACCAGCCTGCCAAGGACCCTGGACGAACTTGGCATCCACCTCACCAAGGAAGAGCTAAAGCTGAACATCCGCCCCCTGCTCAGGCTGGTCTGCAAAAAGTTCTTTGGCGAGTTCACAGGCTTTGTGGACATGTGTGTGCAGCACATTCCATCTCCAAAGGTGGGCGCCAAACCCAAGATCGAGCATACCTACACTGGCGGCGTGGACTCTGACCTTGGCGAGGCCATGAGCGACTGTGACCCAGATGGTCCCCTGATGTGCCACACGACGAAGATGTACAGCACAGATGATGGAGTCCAGTTTCATGCCTTCGGCCGGGTGCTGAGCGGCACCATCCACGCTGGGCAGCCTGTGAAGGTGCTGGGGGAGAACTACACCTTGGAAGACGAGGAAGATTCCCAGATCTGCACCGTGGGCCGCCTCTGGATCTCCGTCGCCAGGTACCACATTGAGGTGAATCGTGTTCCTGCTGGCAACTGGGTCCTGATTGAAGGTGTTGACCAGCCGATCGTGAAGACAGCAACCATAACTGAACCCCGAGGCAATGAGGAGGCTCAGATTTTCCGGCCCTTGAAATTCAATACCACATCTGTTATCAAGATTGCCGTGGAGCCGGTTAACCCCTCAGAGCTGCCCAAAATGCTTGATGGCCTGCGCAAGGTCAACAAGAGCTATCCATCTCTCACCACCAAGGTGGAAGAGTCTGGCGAGCATGTGATCCTGGGCACTGGGGAGCTCTACCTGGACTGTGTGATGCACGACCTGCGGAAGATGTACTCAGAGATCGACATCAAGGTGGCTGACCCAGTTGTGACATTCTGTGAGACAGTGGTAGAAACGTCCTCCCTCAAATGCTTTGCTGAGACACCCAATAAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGACATCAAGGTGGCTGAC
60.04
GGAACTGGAGAAGCAGACGT
59.68
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGACCCAGTTGTGACAT
60.25
GGAACCCAGTGTGAAGCAGA
59.89
178
PCR template sequence:
CAGAGATCGACATCAAGGTGGCTGACCCAGTTGTGACATTCTGTGAGACAGTGGTAGAAACGTCCTCCCTCAAATGCTTTGCTGAGACACCCAATAAGAACATGTATTCCACCGACGAGAACCTGATCCTTTCTCCACTCCTGGGCAACGTCTGCTTCTCCAGTTCCCAGTACAGCATCTGCTTCACACTGGGTTCCTTT
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-129-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCCAATAAGAACATGTATTCCACC
siRNA sets
ATACATGTTCTTATTGGGT, AATACATGTTCTTATTGGG, TACATGTTCTTATTGGGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEFTUD2_1176_ORF_1
1.2926
0.480553733
0.99999989
2349
ORF sequence:
ATGTATTCCACCGACGAGAACCTGATCCTTTCTCCACTCCTGGGCAACGTCTGCTTCTCCAGTTCCCAGTACAGCATCTGCTTCACACTGGGTTCCTTTGCCAAGATCTACGCTGACACCTTTGGTGACATTAATTACCAGGAATTTGCTAAAAGACTCTGGGGTGACATCTACTTCAATCCTAAGACGAGAAAGTTCACCAAAAAGGCTCCCAGCAGCAGCTCCCAGAGGAGCTTCGTGGAGTTCATCTTGGAGCCACTCTATAAGATCCTGGCCCAGGTGGTGGGTGATGTGGACACCAGCCTGCCAAGGACCCTGGACGAACTTGGCATCCACCTCACCAAGGAAGAGCTAAAGCTGAACATCCGCCCCCTGCTCAGGCTGGTCTGCAAAAAGTTCTTTGGCGAGTTCACAGGCTTTGTGGACATGTGTGTGCAGCACATTCCATCTCCAAAGGTGGGCGCCAAACCCAAGATCGAGCATACCTACACTGGCGGCGTGGACTCTGACCTTGGCGAGGCCATGAGCGACTGTGACCCAGATGGTCCCCTGATGTGCCACACGACGAAGATGTACAGCACAGATGATGGAGTCCAGTTTCATGCCTTCGGCCGGGTGCTGAGCGGCACCATCCACGCTGGGCAGCCTGTGAAGGTGCTGGGGGAGAACTACACCTTGGAAGACGAGGAAGATTCCCAGATCTGCACCGTGGGCCGCCTCTGGATCTCCGTCGCCAGGTACCACATTGAGGTGAATCGTGTTCCTGCTGGCAACTGGGTCCTGATTGAAGGTGTTGACCAGCCGATCGTGAAGACAGCAACCATAACTGAACCCCGAGGCAATGAGGAGGCTCAGATTTTCCGGCCCTTGAAATTCAATACCACATCTGTTATCAAGATTGCCGTGGAGCCGGTTAACCCCTCAGAGCTGCCCAAAATGCTTGATGGCCTGCGCAAGGTCAACAAGAGCTATCCATCTCTCACCACCAAGGTGGAAGAGTCTGGCGAGCATGTGATCCTGGGCACTGGGGAGCTCTACCTGGACTGTGTGATGCACGACCTGCGGAAGATGTACTCAGAGATCGACATCAAGGTGGCTGACCCAGTTGTGACATTCTGTGAGACAGTGGTAGAAACGTCCTCCCTCAAATGCTTTGCTGAGACACCCAATAAGAACATGTATTCCACCGACGAGAACCTGATCCTTTCTCCACTCCTGGGCAACGTCTGCTTCTCCAGTTCCCAGTACAGCATCTGCTTCACACTGGGTTCCTTTGCCAAGATCTACGCTGACACCTTTGGTGACATTAATTACCAGGAATTTGCTAAAAGACTCTGGGGTGACATCTACTTCAATCCTAAGACGAGAAAGTTCACCAAAAAGGCTCCCAGCAGCAGCTCCCAGAGGAGCTTCGTGGAGTTCATCTTGGAGCCACTCTATAAGATCCTGGCCCAGGTGGTGGGTGATGTGGACACCAGCCTGCCAAGGACCCTGGACGAACTTGGCATCCACCTCACCAAGGAAGAGCTAAAGCTGAACATCCGCCCCCTGCTCAGGCTGGTCTGCAAAAAGTTCTTTGGCGAGTTCACAGGCTTTGTGGACATGTGTGTGCAGCACATTCCATCTCCAAAGGTGGGCGCCAAACCCAAGATCGAGCATACCTACACTGGCGGCGTGGACTCTGACCTTGGCGAGGCCATGAGCGACTGTGACCCAGATGGTCCCCTGATGTGCCACACGACGAAGATGTACAGCACAGATGATGGAGTCCAGTTTCATGCCTTCGGCCGGGTGCTGAGCGGCACCATCCACGCTGGGCAGCCTGTGAAGGTGCTGGGGGAGAACTACACCTTGGAAGACGAGGAAGATTCCCAGATCTGCACCGTGGGCCGCCTCTGGATCTCCGTCGCCAGGTACCACATTGAGGTGAATCGTGTTCCTGCTGGCAACTGGGTCCTGATTGAAGGTGTTGACCAGCCGATCGTGAAGACAGCAACCATAACTGAACCCCGAGGCAATGAGGAGGCTCAGATTTTCCGGCCCTTGAAATTCAATACCACATCTGTTATCAAGATTGCCGTGGAGCCGGTTAACCCCTCAGAGCTGCCCAAAATGCTTGATGGCCTGCGCAAGGTCAACAAGAGCTATCCATCTCTCACCACCAAGGTGGAAGAGTCTGGCGAGCATGTGATCCTGGGCACTGGGGAGCTCTACCTGGACTGTGTGATGCACGACCTGCGGAAGATGTACTCAGAGATCGACATCAAGGTGGCTGACCCAGTTGTGACATTCTGTGAGACAGTGGTAGAAACGTCCTCCCTCAAATGCTTTGCTGAGACACCCAATAAG
Peptide sequence:
MYSTDENLILSPLLGNVCFSSSQYSICFTLGSFAKIYADTFGDINYQEFAKRLWGDIYFNPKTRKFTKKAPSSSSQRSFVEFILEPLYKILAQVVGDVDTSLPRTLDELGIHLTKEELKLNIRPLLRLVCKKFFGEFTGFVDMCVQHIPSPKVGAKPKIEHTYTGGVDSDLGEAMSDCDPDGPLMCHTTKMYSTDDGVQFHAFGRVLSGTIHAGQPVKVLGENYTLEDEEDSQICTVGRLWISVARYHIEVNRVPAGNWVLIEGVDQPIVKTATITEPRGNEEAQIFRPLKFNTTSVIKIAVEPVNPSELPKMLDGLRKVNKSYPSLTTKVEESGEHVILGTGELYLDCVMHDLRKMYSEIDIKVADPVVTFCETVVETSSLKCFAETPNKNMYSTDENLILSPLLGNVCFSSSQYSICFTLGSFAKIYADTFGDINYQEFAKRLWGDIYFNPKTRKFTKKAPSSSSQRSFVEFILEPLYKILAQVVGDVDTSLPRTLDELGIHLTKEELKLNIRPLLRLVCKKFFGEFTGFVDMCVQHIPSPKVGAKPKIEHTYTGGVDSDLGEAMSDCDPDGPLMCHTTKMYSTDDGVQFHAFGRVLSGTIHAGQPVKVLGENYTLEDEEDSQICTVGRLWISVARYHIEVNRVPAGNWVLIEGVDQPIVKTATITEPRGNEEAQIFRPLKFNTTSVIKIAVEPVNPSELPKMLDGLRKVNKSYPSLTTKVEESGEHVILGTGELYLDCVMHDLRKMYSEIDIKVADPVVTFCETVVETSSLKCFAETPNK
IRESfinder result
IRESfinder score
0.478218632
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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