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mmu_circEif3b_857
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3b_857
mm39_Chr. Position ID:
chr5|140411016|140416083|+
Gene name:
Eif3b
Transcript:
ENSMUST00000100507.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,1175,1521,1755,2148,4790,5000
Genomic length:
5067
Exon/intron sizes in nt:
193,120,58,129,158,132,67
Flanking exon/introns:
chr5:140405581-140411016|chr5:140416083-140416725
Splice length:
857
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225314, circAtlas: mmu-Eif3b_0024
Human Ortholog IDs:
Mature spliced Sequence:
AACTACTTGGTGATGTACTCAAAGATCGGCCTCAGGAAGCGGACGGGATTGACTCGGTGATTGTTGTAGACAACGTCCCTCAGGTGGGGCCAGACCGACTTGAGAAACTCAAAAATGTCATCCACAAGATCTTCTCCAAGTTTGGGAAAATCATAAATGACTATTACCCTGAGGAGGACGGAAAGACGAAAGGGTACATCTTTCTGGAGTACGCTTCTCCCGCCCATGCTGTGGATGCTGTGAAAAACGCCGATGGCTACAAGCTGGACAAGCAGCACACGTTCCGGGTCAACCTCTTCACCGACTTTGACAAGTACATGACGATCAGCGATGAGTGGGACATTCCAGAGAAGCAGCCTTTCAAAGACCTGGGCAATTTGCGTTACTGGCTGGAAGAGGCAGAGTGTAGAGATCAGTACAGTGTGATTTTTGAGAGCGGAGACCGGACGTCCATCTTCTGGAATGACGTCAAGGACCCAGTCTCAATTGAAGAAAGAGCGAGATGGACAGAGACGTACGTGCGCTGGTCCCCTAAGGGTACCTACCTGGCCACTTTCCATCAGCGGGGTATCGCCCTCTGGGGAGGGGACAAGTTCAAGCAGATTCAGAGGTTCAGCCACCAAGGCGTGCAGCTCATCGACTTCTCTCCGTGTGAAAGATACTTGGTAACGTTCAGCCCTCTGATGGACACTCAGGATGACCCTCAGGCCATCATCATCTGGGACATCCTCACGGGCCATAAGAAGAGAGGTTTTCACTGCGAAAGCTCAGCCCACTGGCCCATCTTCAAGTGGAGCCATGATGGCAAATTCTTTGCAAGAATGACCCTGGATACTCTTAGCATCTATGAAACACCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGCCCATCTTCAAGTGG
59.96
ATCACCGAGTCAATCCCGTC
59.54
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTGGCCCATCTTCAAGT
59.96
ATCACCGAGTCAATCCCGTC
59.54
146
PCR template sequence:
CTGCGAAAGCTCAGCCCACTGGCCCATCTTCAAGTGGAGCCATGATGGCAAATTCTTTGCAAGAATGACCCTGGATACTCTTAGCATCTATGAAACACCTAACTACTTGGTGATGTACTCAAAGATCGGCCTCAGGAAGCGGACGGGATTGACTCGGTGATTGTTGTAGACAACGTCCCTCAGGTGGGGCCAGACCGACT
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-802-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATGAAACACCTAACTACTTGGTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3B_857_ORF_1
0.9127
0.350113392
0.898015386
600
ORF sequence:
ATGACGATCAGCGATGAGTGGGACATTCCAGAGAAGCAGCCTTTCAAAGACCTGGGCAATTTGCGTTACTGGCTGGAAGAGGCAGAGTGTAGAGATCAGTACAGTGTGATTTTTGAGAGCGGAGACCGGACGTCCATCTTCTGGAATGACGTCAAGGACCCAGTCTCAATTGAAGAAAGAGCGAGATGGACAGAGACGTACGTGCGCTGGTCCCCTAAGGGTACCTACCTGGCCACTTTCCATCAGCGGGGTATCGCCCTCTGGGGAGGGGACAAGTTCAAGCAGATTCAGAGGTTCAGCCACCAAGGCGTGCAGCTCATCGACTTCTCTCCGTGTGAAAGATACTTGGTAACGTTCAGCCCTCTGATGGACACTCAGGATGACCCTCAGGCCATCATCATCTGGGACATCCTCACGGGCCATAAGAAGAGAGGTTTTCACTGCGAAAGCTCAGCCCACTGGCCCATCTTCAAGTGGAGCCATGATGGCAAATTCTTTGCAAGAATGACCCTGGATACTCTTAGCATCTATGAAACACCTAACTACTTGGTGATGTACTCAAAGATCGGCCTCAGGAAGCGGACGGGATTGACTCGGTGA
Peptide sequence:
MTISDEWDIPEKQPFKDLGNLRYWLEEAECRDQYSVIFESGDRTSIFWNDVKDPVSIEERARWTETYVRWSPKGTYLATFHQRGIALWGGDKFKQIQRFSHQGVQLIDFSPCERYLVTFSPLMDTQDDPQAIIIWDILTGHKKRGFHCESSAHWPIFKWSHDGKFFARMTLDTLSIYETPNYLVMYSKIGLRKRTGLTR
IRESfinder result
IRESfinder score
0.346513923
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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