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mmu_circSec24a_287
Basic information of circular RNA
PanCircBase ID:
mmu_circSec24a_287
mm39_Chr. Position ID:
chr11|51597954|51599872|-
Gene name:
Sec24a
Transcript:
ENSMUST00000109097.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
18,17
Exon/intron offsets:
0,1807
Genomic length:
1918
Exon/intron sizes in nt:
1,76,111
Flanking exon/introns:
chr11:51595240-51597954|chr11:51599872-51603015
Splice length:
287
Other database IDs:
circAtlas: mmu-Sec24a_0068
circBase: hsa_circ_0074002, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_101695
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAAGAAGAATCCGTGTGCATACTTTGTGTTTGCCGGTAGTTTCTACCCTGAATGAAGTCTTTCTTGGAGCTGATGTGCAAGCAATTTCAGGGTTATTAGCCAATATGGCTGTTGACAGGTCGGTGACTGCCAGCCTGAGTGATGCCCGGGATGCTCTGGTGAACGCTGTCATCGACTCTCTCTCAGCTTACCGCTCTTCAGTCCTGAGTGGTCAGCAGCCAGGCCTCATGGTTCCTTTCTCCTTGAGGCTTTTCCCACTTTTTGTGTTGGCTCTCCTAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGCCTCATGGTTCCTTT
59.96
GCTTGCACATCAGCTCCAAG
59.83
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTCTTCAGTCCTGAGTGG
60.11
GCTTGCACATCAGCTCCAAG
59.83
178
PCR template sequence:
AGCTTACCGCTCTTCAGTCCTGAGTGGTCAGCAGCCAGGCCTCATGGTTCCTTTCTCCTTGAGGCTTTTCCCACTTTTTGTGTTGGCTCTCCTAAAACAGGTGAAAGAAGAATCCGTGTGCATACTTTGTGTTTGCCGGTAGTTTCTACCCTGAATGAAGTCTTTCTTGGAGCTGATGTGCAAGCAATTTCAGGGTTATT
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-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCCTAAAACAGGTGAAAGAAGAAT
siRNA sets
ATTCTTCTTTCACCTGTTT, CTTCTTTCACCTGTTTTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC24A_287_ORF_1
0.9067
0.131666185
0.19309028
222
ORF sequence:
ATGGCTGTTGACAGGTCGGTGACTGCCAGCCTGAGTGATGCCCGGGATGCTCTGGTGAACGCTGTCATCGACTCTCTCTCAGCTTACCGCTCTTCAGTCCTGAGTGGTCAGCAGCCAGGCCTCATGGTTCCTTTCTCCTTGAGGCTTTTCCCACTTTTTGTGTTGGCTCTCCTAAAACAGGTGAAAGAAGAATCCGTGTGCATACTTTGTGTTTGCCGGTAG
Peptide sequence:
MAVDRSVTASLSDARDALVNAVIDSLSAYRSSVLSGQQPGLMVPFSLRLFPLFVLALLKQVKEESVCILCVCR
IRESfinder result
IRESfinder score
0.590886887
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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