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mmu_circEif3a_567
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3a_567
mm39_Chr. Position ID:
chr19|60760081|60761477|-
Gene name:
Eif3a
Transcript:
ENSMUST00000025955.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,449,1048
Genomic length:
1396
Exon/intron sizes in nt:
11,41,05,348
Flanking exon/introns:
chr19:60759575-60760081|chr19:60761477-60761944
Splice length:
567
Other database IDs:
circAtlas: mmu-Eif3a_0010
Human Ortholog IDs:
Mature spliced Sequence:
CAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGTTAAAGACATGGACCTGT
59.01
ATTGTCTGTCTCCGAGCCAG
59.47
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTTATGAGGAACAAAGGGT
59.93
ATTGTCTGTCTCCGAGCCAG
59.47
158
PCR template sequence:
GAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGACAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGG
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-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGAAGAAAGACAAGAGAAAGAAG
siRNA sets
CTTTCTCTTGTCTTTCTTC, TTTCTCTTGTCTTTCTTCT, CTTCTTTCTCTTGTCTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3A_567_ORF_1
1.1901
0.385399998
0.981563676
756
ORF sequence:
ATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGACAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA
Peptide sequence:
MAKQVEQLEKEKKELQERLKNQEKKIDYFERAKRLEEIPLIKSAYEEQRVKDMDLWEQQEEERQEKEEQHQLAVNAYLKNSRKEHQRILARRQTIEERKERLESLNIQREKEELEQREAELQKVRKAEEERLRQEAKEREKERILQEHEQIKKKTVRERLEQIKKTELGAKAFKDIDIEDLEELDPDFIMAKQVEQLEKEKKELQERLKNQEKKIDYFERAKRLEEIPLIKSAYEEQRVKDMDLWEQQEEER
IRESfinder result
IRESfinder score
0.482085277
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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