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mmu_circSec24a_522
Basic information of circular RNA
PanCircBase ID:
mmu_circSec24a_522
mm39_Chr. Position ID:
chr11|51608550|51620402|-
Gene name:
Sec24a
Transcript:
ENSMUST00000038210.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,4091,5860,8761,11728
Genomic length:
11852
Exon/intron sizes in nt:
5,61,19,11,31,10,124
Flanking exon/introns:
chr11:51607472-51608550|chr11:51620402-51622629
Splice length:
522
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTAACTTATGTTATCGAGTCAATGATGTTCCTGAAGAATTCATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATGTTACGACCACCACAACCTCCAGTGTACCTCTTTGTATTTGATGTATCTCACAACGCAATAGAAACTGGATACTTGAATTCAGTTTGCCAGAGTTTGTTAGACAATCTGGATCTGCTTCCTGGCAACACTAGGACAAAAATCGGTTTCATAACATTTGATAGCACTATCCATTTCTACAGTCTTCAGGAAGGTCTCTCCCAGCCTCAGATGCTAATAGTTTCAGATATTGACGATGTTTTTATCCCTATGCCAGAGAACTTACTAGTAAACTTAAATGAAAGTAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCCAGCCTCAGATGCTA
59.74
TGCATGAACGGCATCTCACA
60.32
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCCAGCCTCAGATGCTA
59.74
AAGTCCTGCATGAACGGCAT
60.32
147
PCR template sequence:
AGGTCTCTCCCAGCCTCAGATGCTAATAGTTTCAGATATTGACGATGTTTTTATCCCTATGCCAGAGAACTTACTAGTAAACTTAAATGAAAGTAAAGAGTTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-495-3p(1), mmu-miR-26b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAAGTAAAGAGTTGCCCGTGGTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC24A_522_ORF_1
0.8226
0.021207827
0.947196107
906
ORF sequence:
ATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATGTTACGACCACCACAACCTCCAGTGTACCTCTTTGTATTTGATGTATCTCACAACGCAATAGAAACTGGATACTTGAATTCAGTTTGCCAGAGTTTGTTAGACAATCTGGATCTGCTTCCTGGCAACACTAGGACAAAAATCGGTTTCATAACATTTGATAGCACTATCCATTTCTACAGTCTTCAGGAAGGTCTCTCCCAGCCTCAGATGCTAATAGTTTCAGATATTGACGATGTTTTTATCCCTATGCCAGAGAACTTACTAGTAAACTTAAATGAAAGTAAAGAGTTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTAACTTATGTTATCGAGTCAATGATGTTCCTGAAGAATTCATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATGTTACGACCACCACAACCTCCAGTGTACCTCTTTGTATTTGATGTATCTCACAACGCAATAGAAACTGGATACTTGAATTCAGTTTGCCAGAGTTTGTTAGACAATCTGGATCTGCTTCCTGGCAACACTAGGACAAAAATCGGTTTCATAACATTTGATAGCACTATCCATTTCTACAGTCTTCAGGAAGGTCTCTCCCAGCCTCAGATGCTAATAGTTTCAGATATTGACGATGTTTTTATCCCTATGCCAGAGAACTTACTAGTAAACTTAAATGAAAGTAAAGAG
Peptide sequence:
MYNPLTRVYGEPHKRPEVQNATIEFMAPSEYMLRPPQPPVYLFVFDVSHNAIETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYSLQEGLSQPQMLIVSDIDDVFIPMPENLLVNLNESKELPVVTSSTIVRCRSCRTYINPFVNFLDQRRWKCNLCYRVNDVPEEFMYNPLTRVYGEPHKRPEVQNATIEFMAPSEYMLRPPQPPVYLFVFDVSHNAIETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYSLQEGLSQPQMLIVSDIDDVFIPMPENLLVNLNESKE
IRESfinder result
IRESfinder score
0.788370361
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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