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mmu_circAppl1_262
Basic information of circular RNA
PanCircBase ID:
mmu_circAppl1_262
mm39_Chr. Position ID:
chr14|26681381|26685663|-
Gene name:
Appl1
Transcript:
ENSMUST00000036570.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1526,3381,4222
Genomic length:
4282
Exon/intron sizes in nt:
42,88,72,60
Flanking exon/introns:
chr14:26680468-26681381|chr14:26685663-26686815
Splice length:
262
Other database IDs:
circAtlas: hsa-APPL1_0085
Human Ortholog IDs:
Mature spliced Sequence:
AATGAATTGAGTGCAGCAACACACCTGACTTCGAAACTTTTGAAAGAATATGAAAAACAGCGTTTTCCTTTGGGGGGTGATGATGAAGTTATGAGCTCTACTTTGCAGCAGTTTTCCAAGGTCATAGATGAGCTTAGTTCTTGTCATGCAGTACTTTCAACTCAACTTGCTGATGCCATGATGTTCCCCATTTCCCAGTTTAAAGAAAGAGATCTGAAAGAAATATTGACACTAAAGGAGGTATTTCAAATTGCTAGTAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGCCATGATGTTCCCCA
59.37
CCCCAAAGGAAAACGCTGTT
59.25
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGATGCCATGATGTTCCC
59.33
CCCCAAAGGAAAACGCTGTT
59.25
169
PCR template sequence:
CAACTTGCTGATGCCATGATGTTCCCCATTTCCCAGTTTAAAGAAAGAGATCTGAAAGAAATATTGACACTAAAGGAGGTATTTCAAATTGCTAGTAATGAATGAATTGAGTGCAGCAACACACCTGACTTCGAAACTTTTGAAAGAATATGAAAAACAGCGTTTTCCTTTGGGGGGTGATGATGAAGTTATGAGCTCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGCTAGTAATGAATGAATTGAGTG
siRNA sets
AATTCATTCATTACTAGCA,CAATTCATTCATTACTAGC,ACTCAATTCATTCATTACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPPL1_262_ORF_1
0.9981
0.013948723
0.191993409
264
ORF sequence:
ATGAATGAATTGAGTGCAGCAACACACCTGACTTCGAAACTTTTGAAAGAATATGAAAAACAGCGTTTTCCTTTGGGGGGTGATGATGAAGTTATGAGCTCTACTTTGCAGCAGTTTTCCAAGGTCATAGATGAGCTTAGTTCTTGTCATGCAGTACTTTCAACTCAACTTGCTGATGCCATGATGTTCCCCATTTCCCAGTTTAAAGAAAGAGATCTGAAAGAAATATTGACACTAAAGGAGGTATTTCAAATTGCTAGTAAT
Peptide sequence:
MNELSAATHLTSKLLKEYEKQRFPLGGDDEVMSSTLQQFSKVIDELSSCHAVLSTQLADAMMFPISQFKERDLKEILTLKEVFQIASN
IRESfinder result
IRESfinder score
0.708657336
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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