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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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Institute of Life sciences, Bhubaneswar, India

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