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mmu_circAdpgk_410

Basic information of circular RNA
PanCircBase ID:

mmu_circAdpgk_410

mm39_Chr. Position ID:

chr9|59204808|59217631|+

Gene name:

Adpgk

Transcript:

ENSMUST00000217570.2

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

2,3,4

Exon/intron offsets:

0,5963,12702

Genomic length:

12823

Exon/intron sizes in nt:

2,26,63,121

Flanking exon/introns:

chr9:59199149-59204808|chr9:59217631-59220322

Splice length:

410

Other database IDs:

CIRCpedia: MMU_CIRCpedia_213488

circBase: hsa_circ_0004033, circAtlas: hsa-ADPGK_0002, CIRCpedia: HSA_CIRCpedia_15600

Human Ortholog IDs:
Mature spliced Sequence:

AGTCAACGCCTGTGTGGATGTGGTAATCTCTGGCGTGAAACTCCTGCAGGCCCTCGGCCTCAGTCCTGGGAGTGGAAAAGATCATGCTATTCTACACTCGAGAAGTGATCTGGAAGAAGCCTTCCTCTACTTCATGGGGAAGGGAGCCGCTGCTGAGCGCTTCTTCAGTGATAAAGAGACCTTTCATGACATTGCCCAGGCTGCATCTGAGTTTCCAGGAGCTCAGCATTATGTAGGAGGAAATGCTGCTTTAATTGGACAGAGGTTTGCTGCCAACACAGACTTAAAGGTTCTTCTTTGTGGTCCAATTGGCCCAAAACTGCATGAACTTCTTGATGACAATGTGTTTGTTCCACCAGAGTCACTGCAGGAAGAGGATGAGTTCCACCTTATTTTAGAGTACCTGGCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GGCCCAAAACTGCATGAACT

59.32

CAGGAGTTTCACGCCAGAGA

59.68

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGCCCAAAACTGCATGAACT

59.32

TTCCACTCCCAGGACTGAGG

60.55

177

PCR template sequence:

GGCCCAAAACTGCATGAACTTCTTGATGACAATGTGTTTGTTCCACCAGAGTCACTGCAGGAAGAGGATGAGTTCCACCTTATTTTAGAGTACCTGGCAGAGTCAACGCCTGTGTGGATGTGGTAATCTCTGGCGTGAAACTCCTGCAGGCCCTCGGCCTCAGTCCTGGGAGTGGAAAAGATCATGCTATTCTACACTCG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

2

Interacting miRNAs (#binding sites)

mmu-miR-322-5p(1), mmu-miR-495-3p(1)

siRNAs for circular RNA silencing
Junction sequence

GAGTACCTGGCAGAGTCAACGCCTGT

siRNA sets

TTGACTCTGCCAGGTACTC, GTTGACTCTGCCAGGTACT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCADPGK_410_ORF_1

1.2093

0.165691677

0.46271683

303

ORF sequence:

ATGGGGAAGGGAGCCGCTGCTGAGCGCTTCTTCAGTGATAAAGAGACCTTTCATGACATTGCCCAGGCTGCATCTGAGTTTCCAGGAGCTCAGCATTATGTAGGAGGAAATGCTGCTTTAATTGGACAGAGGTTTGCTGCCAACACAGACTTAAAGGTTCTTCTTTGTGGTCCAATTGGCCCAAAACTGCATGAACTTCTTGATGACAATGTGTTTGTTCCACCAGAGTCACTGCAGGAAGAGGATGAGTTCCACCTTATTTTAGAGTACCTGGCAGAGTCAACGCCTGTGTGGATGTGGTAA

Peptide sequence:

MGKGAAAERFFSDKETFHDIAQAASEFPGAQHYVGGNAALIGQRFAANTDLKVLLCGPIGPKLHELLDDNVFVPPESLQEEDEFHLILEYLAESTPVWMW

IRESfinder result

IRESfinder score

0.603188155

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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