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mmu_ciGlyr1_608
Basic information of circular RNA
PanCircBase ID:
mmu_ciGlyr1_608
mm39_Chr. Position ID:
chr16|4847440|4848048|-
Gene name:
Glyr1
Transcript:
ENSMUST00000115844.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
608
Exon/intron sizes in nt:
608
Flanking exon/introns:
chr16:4847417-4848048
Splice length:
608
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGCTCACTTGAGGCAAACGTGTTTATGTTGCCATGGCAACCAGCTGAGTGACAGTGTGGGCCCATGAGGAAATCAGGTGCCAGTGAGATTAAGAATAAACAAAACCTTTAGAACTCAGCCCTTGTGCTGCTAAGCTATCATCACTGCCCTTCAGAGTCTAGGGTGGGAGGAGCTAGGCATACAGCCTGTCCATGCCCGGGAGCTTGCCCATGTGCCTGGTGCCACATCCTGTGGCCCTGTGGTCAGCATGGCCTCTCAACCCTGTATTGCAGCAGGAAGCTTTACTCATGTTTGTGAGGCCAGAGGTTGGGCCAAACTTTGCAAAGATCCCATTGCAGTGGGTGGCTTTGAAAGTGGGCAGATTTCATTTCCAGCCCGGCTCTTCTGACCAACTCCCAAAACGAGGCATATAAGTTGACACCTCTGATGCTCAGAATCAGAGACCTTCGAAGAACTATGTGGAGTGTTGAGGTAATGAGTGTTTACTCTGAATTTGATAAAATTATACGACAAAGAAATATTCTGTGTTACCATCTCACTTTAGGCCTAACCATTTTGGGAAATTACTATGTAGAACTCTTACACTTAATAAATGGTCTTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTAACCATTTTGGGAA
56.99
GATTTCCTCATGGGCCCACA
60.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTAACCATTTTGGGAA
56.99
TGATTTCCTCATGGGCCCAC
60.03
141
PCR template sequence:
TATACGACAAAGAAATATTCTGTGTTACCATCTCACTTTAGGCCTAACCATTTTGGGAAATTACTATGTAGAACTCTTACACTTAATAAATGGTCTTTTTGTGAGTGCTCACTTGAGGCAAACGTGTTTATGTTGCCATGGCAACCAGCTGAGTGACAGTGTGGGCCCATGAGGAAATCAGGTGCCAGTGAGATTAAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-34c-5p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-15b-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-216a-5p(1), mmu-miR-495-3p(1), mmu-miR-30b-5p(1), mmu-miR-34b-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATGGTCTTTTTGTGAGTGCTCACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGLYR1_608_ORF_1
0.8147
-0.211593972
0.056002293
249
ORF sequence:
ATGCTCAGAATCAGAGACCTTCGAAGAACTATGTGGAGTGTTGAGGTAATGAGTGTTTACTCTGAATTTGATAAAATTATACGACAAAGAAATATTCTGTGTTACCATCTCACTTTAGGCCTAACCATTTTGGGAAATTACTATGTAGAACTCTTACACTTAATAAATGGTCTTTTTGTGAGTGCTCACTTGAGGCAAACGTGTTTATGTTGCCATGGCAACCAGCTGAGTGACAGTGTGGGCCCATGA
Peptide sequence:
MLRIRDLRRTMWSVEVMSVYSEFDKIIRQRNILCYHLTLGLTILGNYYVELLHLINGLFVSAHLRQTCLCCHGNQLSDSVGP
IRESfinder result
IRESfinder score
0.674842986
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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