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mmu_circDpy19l1_251
Basic information of circular RNA
PanCircBase ID:
mmu_circDpy19l1_251
mm39_Chr. Position ID:
chr9|24393224|24397025|-
Gene name:
Dpy19l1
Transcript:
ENSMUST00000115277.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,3085,3776
Genomic length:
3801
Exon/intron sizes in nt:
138,88,25
Flanking exon/introns:
chr9:24389123-24393224|chr9:24397025-24399082
Splice length:
251
Other database IDs:
CIRCpedia: MMU_CIRCpedia_40111, circAtlas: mmu-Dpy19l1_0017
Human Ortholog IDs:
Mature spliced Sequence:
CTTCCTTTGCAGCTCTATTGCACTGGAGCCACATAACGCACCTCTTTGAAAACGATCGGCATTTCTCTCACCTCTCAACGCTGGAAAGGGAGATGGCTTTCCGCACTGAAATGGGGCTGTATTACTCTTACTTCAAGACTATTGTGGAAGCACCCTCATTTTTGAATGGAGTATGGATGATAATGAATGACAAGCTGACTGAATACCCCCTTGTTATTAACACATTAAAAAGGTTCAATCTTTACCCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGACTGAATACCCCCTTGT
59.72
AAGCCATCTCCCTTTCCAGC
60.03
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGCTGACTGAATACCCCC
59.72
AAGCCATCTCCCTTTCCAGC
60.03
161
PCR template sequence:
ACCCTCATTTTTGAATGGAGTATGGATGATAATGAATGACAAGCTGACTGAATACCCCCTTGTTATTAACACATTAAAAAGGTTCAATCTTTACCCTGAGCTTCCTTTGCAGCTCTATTGCACTGGAGCCACATAACGCACCTCTTTGAAAACGATCGGCATTTCTCTCACCTCTCAACGCTGGAAAGGGAGATGGCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-130a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTTACCCTGAGCTTCCTTTGCAGC
siRNA sets
AAGGAAGCTCAGGGTAAAG,AAAGGAAGCTCAGGGTAAA,TGCAAAGGAAGCTCAGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDPY19L1_251_ORF_1
0.783
-0.014230348
0.079456027
195
ORF sequence:
ATGGCTTTCCGCACTGAAATGGGGCTGTATTACTCTTACTTCAAGACTATTGTGGAAGCACCCTCATTTTTGAATGGAGTATGGATGATAATGAATGACAAGCTGACTGAATACCCCCTTGTTATTAACACATTAAAAAGGTTCAATCTTTACCCTGAGCTTCCTTTGCAGCTCTATTGCACTGGAGCCACATAA
Peptide sequence:
MAFRTEMGLYYSYFKTIVEAPSFLNGVWMIMNDKLTEYPLVINTLKRFNLYPELPLQLYCTGAT
IRESfinder result
IRESfinder score
0.725143406
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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