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mmu_circAtf2_491
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf2_491
mm39_Chr. Position ID:
chr2|73680932|73710725|-
Gene name:
Atf2
Transcript:
ENSMUST00000112010.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,275,12580,23081,29696
Genomic length:
29793
Exon/intron sizes in nt:
129,119,70,76,97
Flanking exon/introns:
chr2:73676719-73680932|chr2:73710725-73722818
Splice length:
491
Other database IDs:
CIRCpedia: MMU_CIRCpedia_28551, circAtlas: mmu-Atf2_0031
Human Ortholog IDs:
Mature spliced Sequence:
AGATACTAGATGGCAACTTGGGAAGTATTGCTTGCTTAGCAAGAGCTTAGGGATAATTCCTGTTAACAGTAAAACTCATGGCCCACCAGCTACAAAGTGTCTTTGCCATGAAACAGAGGACATGATAAACTGTTTACCTTAATGAAATTCAAGTTGCATGTGAATTCTGCCAGATAAAACACGGACCTGTGGAATATGAGTGATGACAAACCCTTTCTATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACAGCCCTTTACCTCACCC
60.04
CTTTGTAGCTGGTGGGCCAT
60.32
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACAGCCCTTTACCTCACC
60.04
CTTTGTAGCTGGTGGGCCAT
60.32
143
PCR template sequence:
ACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGAGATACTAGATGGCAACTTGGGAAGTATTGCTTGCTTAGCAAGAGCTTAGGGATAATTCCTGTTAACAGTAAAACTCATGGCCCACCAGCTACAAAGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTGATGAAAAGAGATACTAGATGG
siRNA sets
TAGTATCTCTTTTCATCAC, CTAGTATCTCTTTTCATCA, AGTATCTCTTTTCATCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF2_491_ORF_1
0.8332
0.080024942
0.205146573
282
ORF sequence:
ATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGAGATACTAG
Peptide sequence:
MHCPWVWPDQTPTPTRFLKNCEEVGLFNELASPFENEFKKASEDDIKKMPLDLSPLATPIIRSKIEEPSVVETTHQDSPLPHPESTTSDEKRY
IRESfinder result
IRESfinder score
0.539536888
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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