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mmu_circAgfg1_944
Basic information of circular RNA
PanCircBase ID:
mmu_circAgfg1_944
mm39_Chr. Position ID:
chr1|82848405|82861082|+
Gene name:
Agfg1
Transcript:
ENSMUST00000189220.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,4603,5486,9323,11543,12496
Genomic length:
12677
Exon/intron sizes in nt:
1,16,16,31,54,12,02,10,000
Flanking exon/introns:
chr1:82836170-82848405|chr1:82861082-82863831
Splice length:
944
Other database IDs:
circAtlas: mmu-Agfg1_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGCAAACAGATATGGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAATATGAAAAGAAAAGATGGTATGTTCCGCCAGAGCAAGCCAAAGTGGTGGCCTCGGTTCATGCGTCTATTTCAGGGTCTTCTGCCAGCAGCACAAGCAGCACCCCGGAGGTCAAGCCCCTGAAATCCCTGTTGGGAGAGTCTGCACCCGCACTGCACCTAAATAAGGGCACACCTAGTCAGTCCCCAGTTGTAGGTCGCTCTCAAGGGCAGCAGCAGGAGAAGAAGCAGTTTGACCTTTTGAGTGATCTTGGCTCAGACATCTTTGCTGCTCCAGCTCCTCAGTCAACAGCTACAGCCAATTTTGCTAACTTTGCACACTTTAACAGTCATGCAGCTCAGAATTCTGCAAATGCAGATTTTGCAAACTTTGATGCATTTGGACAGTCTAGTGGTTCGAGTAATTTTGGAGGTTTCCCCACAGCAAGTCACTCTTCTTTTCAGCCCCAGACTACAGGTGGAAGTGCTGGATCAGTAAATGCTAATTTTGCTCATTTTGATAACTTCCCTAAATCCTCCAGTGCTGATTTTGGAACCTTCAGTACATCCCAGAGTCATCAGACAGCATCAACTGTTAGTAAAGTTTCAACAAACAAAGCTGGTTTACAGACAGCAGACAAATATGCGGCACTTGCTAATTTAGACAATATCTTCAGTGCTGGGCAAGGAGGTGATCAAGGGAGTGGTTTTGGGACCACGGGTAAAGCTCCTGTTGGTTCTGTGGTTTCAGTTCCCAGTCATTCAAGTGCATCTTCAGACAAGTATGCAGCCCTGGCAGAGTTAGACAGCGTGTTCAGCTCTGCAGCCACCTCCAGTAATGCGTACACGCCCACCAGTAATGCTAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGAGTTAGACAGCGTGT
60.04
TGTGGATCCCTGAAGTCTGGA
60.2
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAGAGTTAGACAGCGTG
60.04
TGTGGATCCCTGAAGTCTGGA
60.2
147
PCR template sequence:
CATCTTCAGACAAGTATGCAGCCCTGGCAGAGTTAGACAGCGTGTTCAGCTCTGCAGCCACCTCCAGTAATGCGTACACGCCCACCAGTAATGCTAGCAGGTCTGCAAACAGATATGGCTAGGATTATTTGATGACAGATCTTCAGCAATTCCAGACTTCAGGGATCCACAAAAAGTGAAAGAGTTTCTACAAGAGAAAT
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-19b-3p(1), mmu-miR-26a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-19a-3p(1), mmu-miR-541-5p(1), mmu-miR-342-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAATGCTAGCAGGTCTGCAAACAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.696028782
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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