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mmu_circAgfg1_210
Basic information of circular RNA
PanCircBase ID:
mmu_circAgfg1_210
mm39_Chr. Position ID:
chr1|82836076|82848521|+
Gene name:
Agfg1
Transcript:
ENSMUST00000189220.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,12329
Genomic length:
12445
Exon/intron sizes in nt:
94,116
Flanking exon/introns:
chr1:82817610-82836076|chr1:82848521-82853008
Splice length:
210
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31131, circAtlas: mmu-Agfg1_0003
circBase: hsa_circ_0058512, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39892
Human Ortholog IDs:
Mature spliced Sequence:
GAGAGGGTTAAATCCACCTCACAGGGTGAAATCTATCTCCATGACAACATTTACACAACAGGAAATTGAATTCCTACAAAAACATGGAAATGAAGTCTGCAAACAGATATGGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAATATGAAAAGAAAAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGACTTCAGGGATCCACA
60.2
GCAGACTTCATTTCCATGTTTTTGT
59.25
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGACTTCAGGGATCCACA
58.72
GCAGACTTCATTTCCATGTTTTTGT
59.25
165
PCR template sequence:
GGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAATATGAAAAGAAAAGATGGAGAGGGTTAAATCCACCTCACAGGGTGAAATCTATCTCCATGACAACATTTACACAACAGGAAATTGAATTCCTACAAAAACATGGAAATGAAGTCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAGAAAAGATGGAGAGGGTTAAAT
siRNA sets
TAACCCTCTCCATCTTTTC, AACCCTCTCCATCTTTTCT, TTTAACCCTCTCCATCTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGFG1_210_ORF_1
0.7785
-0.050828825
0.216656421
378
ORF sequence:
ATGACAACATTTACACAACAGGAAATTGAATTCCTACAAAAACATGGAAATGAAGTCTGCAAACAGATATGGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAATATGAAAAGAAAAGATGGAGAGGGTTAAATCCACCTCACAGGGTGAAATCTATCTCCATGACAACATTTACACAACAGGAAATTGAATTCCTACAAAAACATGGAAATGAAGTCTGCAAACAGATATGGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAATATGAAAAGAAAAGA
Peptide sequence:
MTTFTQQEIEFLQKHGNEVCKQIWLGLFDDRSSAIPDFRDPQKVKEFLQEKYEKKRWRGLNPPHRVKSISMTTFTQQEIEFLQKHGNEVCKQIWLGLFDDRSSAIPDFRDPQKVKEFLQEKYEKKR
IRESfinder result
IRESfinder score
0.515735072
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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