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mmu_circGlyr1_496
Basic information of circular RNA
PanCircBase ID:
mmu_circGlyr1_496
mm39_Chr. Position ID:
chr16|4854099|4866650|-
Gene name:
Glyr1
Transcript:
ENSMUST00000115844.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,683,11498,12514
Genomic length:
12551
Exon/intron sizes in nt:
240,139,80,37
Flanking exon/introns:
chr16:4849837-4854099|chr16:4866650-4867669
Splice length:
496
Other database IDs:
circAtlas: mmu-Glyr1_0008
Human Ortholog IDs:
Mature spliced Sequence:
GGGGAAACTGGGCCGGTATCCTCCCTGGCCAGGAAAGATTGTTAATCCACCCAAGGACTTAAAGAAACCACGTGGAAAGAAATGCTTCTTTGTGAAGTTTTTTGGAACAGAAGATCATGCCTGGATCAAAGTGGAACAGCTAAAGCCTTACCATGCTCACAAGGAGGAGATGATAAAGATTAACAAGGGTAAACGGTTCCAGCAAGCTGTGGATGCTGTTGAAGAGTTCCTCAGGAGAGCCAAAGGGAAAGACCAGACATCATCCCACACTTCTGCTGATGACAAGAATCGGCGTAATTCCAGTGAGGAGAGAAGTAGGCCAAACTCAGGTGATGAGAAACGCAAGCTTAGCCTGTCTGAAGGGAAGGTGAAGAAGAACATGGGAGAAGGAAAGAAGAGGGTGACTTCAGGCTCTGCAGACAGAGGCTCCAAATGCCTTAAAAGAGCCCAAGAGCAAAGTCCCCGGAAGCGGGGTCGGCCCCCAAAGGATGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCCCAAGAGCAAAGTCC
59.96
AGCATTTCTTTCCACGTGGT
58.02
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACTTCAGGCTCTGCAGACA
59.68
AGCATTTCTTTCCACGTGGT
58.02
180
PCR template sequence:
GAGGGTGACTTCAGGCTCTGCAGACAGAGGCTCCAAATGCCTTAAAAGAGCCCAAGAGCAAAGTCCCCGGAAGCGGGGTCGGCCCCCAAAGGATGAGAAGGGGGAAACTGGGCCGGTATCCTCCCTGGCCAGGAAAGATTGTTAATCCACCCAAGGACTTAAAGAAACCACGTGGAAAGAAATGCTTCTTTGTGAAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-351-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGGATGAGAAGGGGGAAACTGGGC
siRNA sets
AGTTTCCCCCTTCTCATCC, GTTTCCCCCTTCTCATCCT, TTTCCCCCTTCTCATCCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGLYR1_496_ORF_1
0.8675
0.260420043
0.740524174
504
ORF sequence:
ATGAGAAGGGGGAAACTGGGCCGGTATCCTCCCTGGCCAGGAAAGATTGTTAATCCACCCAAGGACTTAAAGAAACCACGTGGAAAGAAATGCTTCTTTGTGAAGTTTTTTGGAACAGAAGATCATGCCTGGATCAAAGTGGAACAGCTAAAGCCTTACCATGCTCACAAGGAGGAGATGATAAAGATTAACAAGGGTAAACGGTTCCAGCAAGCTGTGGATGCTGTTGAAGAGTTCCTCAGGAGAGCCAAAGGGAAAGACCAGACATCATCCCACACTTCTGCTGATGACAAGAATCGGCGTAATTCCAGTGAGGAGAGAAGTAGGCCAAACTCAGGTGATGAGAAACGCAAGCTTAGCCTGTCTGAAGGGAAGGTGAAGAAGAACATGGGAGAAGGAAAGAAGAGGGTGACTTCAGGCTCTGCAGACAGAGGCTCCAAATGCCTTAAAAGAGCCCAAGAGCAAAGTCCCCGGAAGCGGGGTCGGCCCCCAAAGGATGAGAAG
Peptide sequence:
MRRGKLGRYPPWPGKIVNPPKDLKKPRGKKCFFVKFFGTEDHAWIKVEQLKPYHAHKEEMIKINKGKRFQQAVDAVEEFLRRAKGKDQTSSHTSADDKNRRNSSEERSRPNSGDEKRKLSLSEGKVKKNMGEGKKRVTSGSADRGSKCLKRAQEQSPRKRGRPPKDEK
IRESfinder result
IRESfinder score
0.265771851
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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