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mmu_circAgfg1_828
Basic information of circular RNA
PanCircBase ID:
mmu_circAgfg1_828
mm39_Chr. Position ID:
chr1|82853008|82861082|+
Gene name:
Agfg1
Transcript:
ENSMUST00000189220.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,883,4720,6940,7893
Genomic length:
8074
Exon/intron sizes in nt:
16,31,54,12,02,10,181
Flanking exon/introns:
chr1:82848521-82853008|chr1:82861082-82863831
Splice length:
828
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_158140
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTTCCGCCAGAGCAAGCCAAAGTGGTGGCCTCGGTTCATGCGTCTATTTCAGGGTCTTCTGCCAGCAGCACAAGCAGCACCCCGGAGGTCAAGCCCCTGAAATCCCTGTTGGGAGAGTCTGCACCCGCACTGCACCTAAATAAGGGCACACCTAGTCAGTCCCCAGTTGTAGGTCGCTCTCAAGGGCAGCAGCAGGAGAAGAAGCAGTTTGACCTTTTGAGTGATCTTGGCTCAGACATCTTTGCTGCTCCAGCTCCTCAGTCAACAGCTACAGCCAATTTTGCTAACTTTGCACACTTTAACAGTCATGCAGCTCAGAATTCTGCAAATGCAGATTTTGCAAACTTTGATGCATTTGGACAGTCTAGTGGTTCGAGTAATTTTGGAGGTTTCCCCACAGCAAGTCACTCTTCTTTTCAGCCCCAGACTACAGGTGGAAGTGCTGGATCAGTAAATGCTAATTTTGCTCATTTTGATAACTTCCCTAAATCCTCCAGTGCTGATTTTGGAACCTTCAGTACATCCCAGAGTCATCAGACAGCATCAACTGTTAGTAAAGTTTCAACAAACAAAGCTGGTTTACAGACAGCAGACAAATATGCGGCACTTGCTAATTTAGACAATATCTTCAGTGCTGGGCAAGGAGGTGATCAAGGGAGTGGTTTTGGGACCACGGGTAAAGCTCCTGTTGGTTCTGTGGTTTCAGTTCCCAGTCATTCAAGTGCATCTTCAGACAAGTATGCAGCCCTGGCAGAGTTAGACAGCGTGTTCAGCTCTGCAGCCACCTCCAGTAATGCGTACACGCCCACCAGTAATGCTAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGAGTTAGACAGCGTGT
60.04
GCTGGCAGAAGACCCTGAAA
60.25
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAGAGTTAGACAGCGTG
60.04
GCTGGCAGAAGACCCTGAAA
60.25
146
PCR template sequence:
CATCTTCAGACAAGTATGCAGCCCTGGCAGAGTTAGACAGCGTGTTCAGCTCTGCAGCCACCTCCAGTAATGCGTACACGCCCACCAGTAATGCTAGCAGGTATGTTCCGCCAGAGCAAGCCAAAGTGGTGGCCTCGGTTCATGCGTCTATTTCAGGGTCTTCTGCCAGCAGCACAAGCAGCACCCCGGAGGTCAAGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-19b-3p(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)
siRNAs for circular RNA silencing
Junction sequence
GTAATGCTAGCAGGTATGTTCCGCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGFG1_828_ORF_5
1.1235
0.024246225
0.107249172
135
ORF sequence:
ATGCGTACACGCCCACCAGTAATGCTAGCAGGTATGTTCCGCCAGAGCAAGCCAAAGTGGTGGCCTCGGTTCATGCGTCTATTTCAGGGTCTTCTGCCAGCAGCACAAGCAGCACCCCGGAGGTCAAGCCCCTGA
Peptide sequence:
MRTRPPVMLAGMFRQSKPKWWPRFMRLFQGLLPAAQAAPRRSSP
IRESfinder result
IRESfinder score
0.737544679
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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