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mmu_circEif2ak4_331
Basic information of circular RNA
PanCircBase ID:
mmu_circEif2ak4_331
mm39_Chr. Position ID:
chr2|118301316|118304631|+
Gene name:
Eif2ak4
Transcript:
ENSMUST00000005233.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
35,36,37,38
Exon/intron offsets:
0,1054,1806,3196
Genomic length:
3315
Exon/intron sizes in nt:
98,69,45,119
Flanking exon/introns:
chr2:118300783-118301316|chr2:118304631-118305483
Splice length:
331
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTTTGAAATCCATGGAACTACAGTAGTCCCCAACGTGATTGTTCTAGCACCAGAAAAGCTGTCAGCCAGCACCAGGAGGCGACATGAGATTCAGGTGCAAACCCGACTTCAGACTACACTTGCCAACTTACATCAGAAAAGCAGTGAAATTGAAATTTTGGCTGTGGACCTACCCAAGGAAACAATCTTACAGTTTCTATCATTAGAGTGGGATGCTGATGAACAGGCATTTAACACAACTGTGAAGCAGCTGCTGTCACGCCTGCCAAAGCAAAGATACCTCAAACTCGTCTGCGATGAAATTTATAACATCAAAGTTGAAAAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTCAAACTCGTCTGCGAT
59.4
AATCTCATGTCGCCTCCTGG
59.53
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTCAAACTCGTCTGCGAT
59.4
ATCTCATGTCGCCTCCTGGT
60.69
143
PCR template sequence:
CATTTAACACAACTGTGAAGCAGCTGCTGTCACGCCTGCCAAAGCAAAGATACCTCAAACTCGTCTGCGATGAAATTTATAACATCAAAGTTGAAAAGAAGTTTGTTTGAAATCCATGGAACTACAGTAGTCCCCAACGTGATTGTTCTAGCACCAGAAAAGCTGTCAGCCAGCACCAGGAGGCGACATGAGATTCAGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-216a-5p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTTGAAAAGAAGTTTGTTTGAAAT
siRNA sets
TCAAACAAACTTCTTTTCA, AAACAAACTTCTTTTCAAC, TTTCAAACAAACTTCTTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF2AK4_331_ORF_1
0.9646
0.136159049
0.423063795
360
ORF sequence:
ATGAAATTTATAACATCAAAGTTGAAAAGAAGTTTGTTTGAAATCCATGGAACTACAGTAGTCCCCAACGTGATTGTTCTAGCACCAGAAAAGCTGTCAGCCAGCACCAGGAGGCGACATGAGATTCAGGTGCAAACCCGACTTCAGACTACACTTGCCAACTTACATCAGAAAAGCAGTGAAATTGAAATTTTGGCTGTGGACCTACCCAAGGAAACAATCTTACAGTTTCTATCATTAGAGTGGGATGCTGATGAACAGGCATTTAACACAACTGTGAAGCAGCTGCTGTCACGCCTGCCAAAGCAAAGATACCTCAAACTCGTCTGCGATGAAATTTATAACATCAAAGTTGAAAAG
Peptide sequence:
MKFITSKLKRSLFEIHGTTVVPNVIVLAPEKLSASTRRRHEIQVQTRLQTTLANLHQKSSEIEILAVDLPKETILQFLSLEWDADEQAFNTTVKQLLSRLPKQRYLKLVCDEIYNIKVEK
IRESfinder result
IRESfinder score
0.666873907
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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