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mmu_circAdam23_424
Basic information of circular RNA
PanCircBase ID:
mmu_circAdam23_424
mm39_Chr. Position ID:
chr1|63554735|63576143|+
Gene name:
Adam23
Transcript:
ENSMUST00000182642.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,13181,14658,18709,19558,21342
Genomic length:
21408
Exon/intron sizes in nt:
64,83,64,73,74,66
Flanking exon/introns:
chr1:63516914-63554735|chr1:63576143-63582277
Splice length:
424
Other database IDs:
circBase: mmu_circ_0008879, CIRCpedia: MMU_CIRCpedia_25594, circAtlas: mmu-Adam23_0001
circBase: hsa_circ_0118907, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_146444
Human Ortholog IDs:
Mature spliced Sequence:
TGGTTTGCTATCTTCTGACTACGTGGAGATCCACTATGAAGACGGGAAGCAGATGTACTCTAAGGGTGGAGAGCACTGTTACTACCACGGAAGCATCAGAGGCGTCAAGGATTCCAGGGTGGCTCTATCGACCTGCAATGGACTCCATGGCATGTTTGAGGATGACACCTTTGTGTATATGATAGAGCCGCTGGAACTGACTGATGATGAGAAAAGCACAGGCCGACCACACATAATCCAGAAAACCTTGGCAGGACAGTATTCTAAGCAGATGAAGAATCTCAGCACAGATGGCAGTGACCAGTGGCCTTTGCTACCTGAATTACAATGGCTGAGAAGAAGGAAAAGAGCGGTCAATCCATCTCGTGGTGTGTTTGAAGAAATGAAGTATTTGGAGCTTATGATTGTTAATGATCACAAGACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCGGTCAATCCATCTCGT
59.9
GTAACAGTGCTCTCCACCCT
59.02
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCGGTCAATCCATCTCGT
59.9
AGTAACAGTGCTCTCCACCC
59.02
160
PCR template sequence:
ACAATGGCTGAGAAGAAGGAAAAGAGCGGTCAATCCATCTCGTGGTGTGTTTGAAGAAATGAAGTATTTGGAGCTTATGATTGTTAATGATCACAAGACGTGGTTTGCTATCTTCTGACTACGTGGAGATCCACTATGAAGACGGGAAGCAGATGTACTCTAAGGGTGGAGAGCACTGTTACTACCACGGAAGCATCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-218-5p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-1187(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATCACAAGACGTGGTTTGCTATCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAM23_424_ORF_1
0.9394
0.22539999
0.637912775
438
ORF sequence:
ATGATCACAAGACGTGGTTTGCTATCTTCTGACTACGTGGAGATCCACTATGAAGACGGGAAGCAGATGTACTCTAAGGGTGGAGAGCACTGTTACTACCACGGAAGCATCAGAGGCGTCAAGGATTCCAGGGTGGCTCTATCGACCTGCAATGGACTCCATGGCATGTTTGAGGATGACACCTTTGTGTATATGATAGAGCCGCTGGAACTGACTGATGATGAGAAAAGCACAGGCCGACCACACATAATCCAGAAAACCTTGGCAGGACAGTATTCTAAGCAGATGAAGAATCTCAGCACAGATGGCAGTGACCAGTGGCCTTTGCTACCTGAATTACAATGGCTGAGAAGAAGGAAAAGAGCGGTCAATCCATCTCGTGGTGTGTTTGAAGAAATGAAGTATTTGGAGCTTATGATTGTTAATGATCACAAGACG
Peptide sequence:
MITRRGLLSSDYVEIHYEDGKQMYSKGGEHCYYHGSIRGVKDSRVALSTCNGLHGMFEDDTFVYMIEPLELTDDEKSTGRPHIIQKTLAGQYSKQMKNLSTDGSDQWPLLPELQWLRRRKRAVNPSRGVFEEMKYLELMIVNDHKT
IRESfinder result
IRESfinder score
0.362414445
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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