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mmu_circApoo_471
Basic information of circular RNA
PanCircBase ID:
mmu_circApoo_471
mm39_Chr. Position ID:
chrX|93423531|93437886|+
Gene name:
Apoo
Transcript:
ENSMUST00000113898.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,2185,7739,10819,14263
Genomic length:
14355
Exon/intron sizes in nt:
108,120,55,96,92
Flanking exon/introns:
chrX:93410768-93423531|chrX:93437886-93441727
Splice length:
471
Other database IDs:
circBase: hsa_circ_0090102
Human Ortholog IDs:
Mature spliced Sequence:
GTAATTCAGAGATCTGTGGGGCCAGCCAGCCTGAGCCTGCTCACCTTCAGAGTCTATGCAGCACCCAAAAAGGACTCGCCTCACAAAAGTTACATGAAGATCGATGAGCTTTCACTCTACTCAGTTCCTGAGGGTCAATCTAAATATGTGGAGGAGCCAAGGACTCAACTTGAAGAAAACATCTCACAACTCCGACATCATTGTGAGCCATATACAAGTTTCTGTCAGGAAATATACTCCCATACTAAACCCAAGGTGGATCACTTTGTCCAGTGGGGAGTAGACAACTATAACTATCTTCAAAATGCGCCTCCTGGATTTTTCCCAAGACTCGGTGTTATTGGTTTTGCTGGTTTTGTTGGACTCCTTTTTGCTAGAGGTTCAAAAATAAAGAAGCTGGTGTATCCTCCTTTTTTCATGGGATTAGGTGCCTCTGTCTATTACCCACAACAAGCCATCACCATTGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGATTAGGTGCCTCTGTC
58.8
AACTTTTGTGAGGCGAGTCC
58.41
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGATTAGGTGCCTCTGTCT
60.27
AACTTTTGTGAGGCGAGTCC
58.41
144
PCR template sequence:
TGCTAGAGGTTCAAAAATAAAGAAGCTGGTGTATCCTCCTTTTTTCATGGGATTAGGTGCCTCTGTCTATTACCCACAACAAGCCATCACCATTGCCCAGGTAATTCAGAGATCTGTGGGGCCAGCCAGCCTGAGCCTGCTCACCTTCAGAGTCTATGCAGCACCCAAAAAGGACTCGCCTCACAAAAGTTACATGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-135a-5p(1), mmu-miR-214-3p(1), mmu-miR-153-3p(1), mmu-miR-484(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCATTGCCCAGGTAATTCAGAGAT
siRNA sets
ATCTCTGAATTACCTGGGC, TCTCTGAATTACCTGGGCA, TGAATTACCTGGGCAATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPOO_471_ORF_1
0.9801
0.044928383
0.946234748
849
ORF sequence:
ATGAAGATCGATGAGCTTTCACTCTACTCAGTTCCTGAGGGTCAATCTAAATATGTGGAGGAGCCAAGGACTCAACTTGAAGAAAACATCTCACAACTCCGACATCATTGTGAGCCATATACAAGTTTCTGTCAGGAAATATACTCCCATACTAAACCCAAGGTGGATCACTTTGTCCAGTGGGGAGTAGACAACTATAACTATCTTCAAAATGCGCCTCCTGGATTTTTCCCAAGACTCGGTGTTATTGGTTTTGCTGGTTTTGTTGGACTCCTTTTTGCTAGAGGTTCAAAAATAAAGAAGCTGGTGTATCCTCCTTTTTTCATGGGATTAGGTGCCTCTGTCTATTACCCACAACAAGCCATCACCATTGCCCAGGTAATTCAGAGATCTGTGGGGCCAGCCAGCCTGAGCCTGCTCACCTTCAGAGTCTATGCAGCACCCAAAAAGGACTCGCCTCACAAAAGTTACATGAAGATCGATGAGCTTTCACTCTACTCAGTTCCTGAGGGTCAATCTAAATATGTGGAGGAGCCAAGGACTCAACTTGAAGAAAACATCTCACAACTCCGACATCATTGTGAGCCATATACAAGTTTCTGTCAGGAAATATACTCCCATACTAAACCCAAGGTGGATCACTTTGTCCAGTGGGGAGTAGACAACTATAACTATCTTCAAAATGCGCCTCCTGGATTTTTCCCAAGACTCGGTGTTATTGGTTTTGCTGGTTTTGTTGGACTCCTTTTTGCTAGAGGTTCAAAAATAAAGAAGCTGGTGTATCCTCCTTTTTTCATGGGATTAGGTGCCTCTGTCTATTACCCACAACAAGCCATCACCATTGCCCAG
Peptide sequence:
MKIDELSLYSVPEGQSKYVEEPRTQLEENISQLRHHCEPYTSFCQEIYSHTKPKVDHFVQWGVDNYNYLQNAPPGFFPRLGVIGFAGFVGLLFARGSKIKKLVYPPFFMGLGASVYYPQQAITIAQVIQRSVGPASLSLLTFRVYAAPKKDSPHKSYMKIDELSLYSVPEGQSKYVEEPRTQLEENISQLRHHCEPYTSFCQEIYSHTKPKVDHFVQWGVDNYNYLQNAPPGFFPRLGVIGFAGFVGLLFARGSKIKKLVYPPFFMGLGASVYYPQQAITIAQ
IRESfinder result
IRESfinder score
0.809849272
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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