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mmu_circPcdh15_305
Basic information of circular RNA
PanCircBase ID:
mmu_circPcdh15_305
mm39_Chr. Position ID:
chr10|74419844|74430080|+
Gene name:
Pcdh15
Transcript:
ENSMUST00000064562.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
25,26
Exon/intron offsets:
0,10147
Genomic length:
10236
Exon/intron sizes in nt:
216,89
Flanking exon/introns:
chr10:74386416-74419844|chr10:74430080-74457030
Splice length:
305
Other database IDs:
circAtlas: hsa-PCDH15_0028, CIRCpedia: HSA_CIRCpedia_143338
Human Ortholog IDs:
Mature spliced Sequence:
GCCACCGACAGGGACACGGGTAATTACAGTGCCATGGCCTACCGGCTCATCATACCGCCGATTAAAGAGGGCAAAGAGGGGTTTGTGGTGGAAACATACACAGGTCTCATCAAGACAGCCATGCTCTTCCACAATATGAGAAGATCCTACTTCAAGTTTCAAGTGATTGCAACTGACGACTACGGGAAGGGGTTGAGCGGGAAAGCAGACGTACTGGTCTCCGTGGTCAATCAACTGGATATGCAGGTCATTGTCTCCAATGTGCCCCCTACACTAGTGGAAAAGAAGATAGAAGACCTTACAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACGTACTGGTCTCCGTG
59.83
GCCCTCTTTAATCGGCGGTA
59.89
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACGTACTGGTCTCCGTG
59.83
CGGTATGATGAGCCGGTAGG
59.76
157
PCR template sequence:
CAGACGTACTGGTCTCCGTGGTCAATCAACTGGATATGCAGGTCATTGTCTCCAATGTGCCCCCTACACTAGTGGAAAAGAAGATAGAAGACCTTACAGAGCCACCGACAGGGACACGGGTAATTACAGTGCCATGGCCTACCGGCTCATCATACCGCCGATTAAAGAGGGCAAAGAGGGGTTTGTGGTGGAAACATACA
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-223-3p(1), mmu-miR-183-5p(1), mmu-miR-297a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGACCTTACAGAGCCACCGACAGGG
siRNA sets
GTCGGTGGCTCTGTAAGGT, TGTCGGTGGCTCTGTAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCDH15_305_ORF_1
0.9727
0.176549954
0.559526737
411
ORF sequence:
ATGGCCTACCGGCTCATCATACCGCCGATTAAAGAGGGCAAAGAGGGGTTTGTGGTGGAAACATACACAGGTCTCATCAAGACAGCCATGCTCTTCCACAATATGAGAAGATCCTACTTCAAGTTTCAAGTGATTGCAACTGACGACTACGGGAAGGGGTTGAGCGGGAAAGCAGACGTACTGGTCTCCGTGGTCAATCAACTGGATATGCAGGTCATTGTCTCCAATGTGCCCCCTACACTAGTGGAAAAGAAGATAGAAGACCTTACAGAGCCACCGACAGGGACACGGGTAATTACAGTGCCATGGCCTACCGGCTCATCATACCGCCGATTAAAGAGGGCAAAGAGGGGTTTGTGGTGGAAACATACACAGGTCTCATCAAGACAGCCATGCTCTTCCACAATATGA
Peptide sequence:
MAYRLIIPPIKEGKEGFVVETYTGLIKTAMLFHNMRRSYFKFQVIATDDYGKGLSGKADVLVSVVNQLDMQVIVSNVPPTLVEKKIEDLTEPPTGTRVITVPWPTGSSYRRLKRAKRGLWWKHTQVSSRQPCSSTI
IRESfinder result
IRESfinder score
0.471904772
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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