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mmu_circAldh3a2_527
Basic information of circular RNA
PanCircBase ID:
mmu_circAldh3a2_527
mm39_Chr. Position ID:
chr11|61153044|61156121|-
Gene name:
Aldh3a2
Transcript:
ENSMUST00000066277.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,2027,2845
Genomic length:
3077
Exon/intron sizes in nt:
209,86,232
Flanking exon/introns:
chr11:61149684-61153044|chr11:61156121-61157679
Splice length:
527
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222835, circAtlas: mmu-Aldh3a2_0002
Human Ortholog IDs:
Mature spliced Sequence:
AGTGAACTCAATGCATACAGTCATGAAGTCATTACCATCCTTGGAGAGATTGATTTTATGTTGGGGAATCTTCCTGAATTGGCTTCTGCGAGACCGGCTAAGAAGAACCTGCTAACCATGATGGATGAGGCCTACGTTCAGCCCGAGCCTCTGGGAGTCGTACTGATTATTGGAGCTTGGAATTACCCTTTCGTTCTTACCATGCAACCGCTGGTGGGAGCCATTGCTGCAGGAAATGCTGCCATTGTTAAGCCCTCAGAACTCAGTGAAAACACGGCCAAGATCTTGGCTGAACTCCTCCCTCAGTACTTAGACCAGGACCTGTATGCGATTGTTAATGGCGGTATCCCGGAAACCACGGAGCTTCTGAAGCAGCGGTTTGACCACATTCTCTATACAGGGAACACTGCAGTTGGAAAAATTGTCATGGAAGCTGCTGCCAAGCATCTGACCCCTGTGACCCTGGAACTCGGCGGGAAAAGCCCTTGTTACATTGACAGAGACTGTGATCTGGACGTGGCTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCATCTGACCCCTGTGA
59.67
TCGCAGAAGCCAATTCAGGA
59.68
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCATCTGACCCCTGTGAC
59.67
TCGCAGAAGCCAATTCAGGA
59.68
177
PCR template sequence:
TGGAAGCTGCTGCCAAGCATCTGACCCCTGTGACCCTGGAACTCGGCGGGAAAAGCCCTTGTTACATTGACAGAGACTGTGATCTGGACGTGGCTTGCAGAGTGAACTCAATGCATACAGTCATGAAGTCATTACCATCCTTGGAGAGATTGATTTTATGTTGGGGAATCTTCCTGAATTGGCTTCTGCGAGACCGGCTA
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-103-3p(1), mmu-miR-33-5p(1), mmu-miR-411-3p(1), mmu-miR-107-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGTGGCTTGCAGAGTGAACTCAATG
siRNA sets
TGAGTTCACTCTGCAAGCC, AGTTCACTCTGCAAGCCAC, TTGAGTTCACTCTGCAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALDH3A2_527_ORF_1
1.1293
0.191993497
0.862816726
585
ORF sequence:
ATGTTGGGGAATCTTCCTGAATTGGCTTCTGCGAGACCGGCTAAGAAGAACCTGCTAACCATGATGGATGAGGCCTACGTTCAGCCCGAGCCTCTGGGAGTCGTACTGATTATTGGAGCTTGGAATTACCCTTTCGTTCTTACCATGCAACCGCTGGTGGGAGCCATTGCTGCAGGAAATGCTGCCATTGTTAAGCCCTCAGAACTCAGTGAAAACACGGCCAAGATCTTGGCTGAACTCCTCCCTCAGTACTTAGACCAGGACCTGTATGCGATTGTTAATGGCGGTATCCCGGAAACCACGGAGCTTCTGAAGCAGCGGTTTGACCACATTCTCTATACAGGGAACACTGCAGTTGGAAAAATTGTCATGGAAGCTGCTGCCAAGCATCTGACCCCTGTGACCCTGGAACTCGGCGGGAAAAGCCCTTGTTACATTGACAGAGACTGTGATCTGGACGTGGCTTGCAGAGTGAACTCAATGCATACAGTCATGAAGTCATTACCATCCTTGGAGAGATTGATTTTATGTTGGGGAATCTTCCTGAATTGGCTTCTGCGAGACCGGCTAAGAAGAACCTGCTAA
Peptide sequence:
MLGNLPELASARPAKKNLLTMMDEAYVQPEPLGVVLIIGAWNYPFVLTMQPLVGAIAAGNAAIVKPSELSENTAKILAELLPQYLDQDLYAIVNGGIPETTELLKQRFDHILYTGNTAVGKIVMEAAAKHLTPVTLELGGKSPCYIDRDCDLDVACRVNSMHTVMKSLPSLERLILCWGIFLNWLLRDRLRRTC
IRESfinder result
IRESfinder score
0.559159959
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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