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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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