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mmu_ciAgfg1_842
Basic information of circular RNA
PanCircBase ID:
mmu_ciAgfg1_842
mm39_Chr. Position ID:
chr1|82871303|82872145|+
Gene name:
Agfg1
Transcript:
ENSMUST00000189220.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
842
Exon/intron sizes in nt:
842
Flanking exon/introns:
chr1:82871303-82872202
Splice length:
842
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAGCATGAACATTCGGCCAGCTGCACGATTTCAGTACTTTTACAGACTGCCTTAAGACTGCAGTCGTTTTATTTGCTCAGTGTTGACTACCTACACTAGAAGAGCCTTTGGCGATGTGGGTTTAAGGAGACTGTGGTTTAATACATTTCCTTGATGTTAGGAGACATCGGTGACTGTAAAAGTCTTCTCAAAGTCACCATGTCTTTTGTCTTACAAGTCCATCTTGTGTGTTCTCATGTTTCTTGACTTGAAGTGCAAATTGTGTAGTCCTGTAGACTTCGAGTATTAGTTTTATTTTCTTTTTCCATGGCAAATGGTTGCTGGTATGCTTTTAGGGTGGGCGTGTGTATTTTGACTAATTCTCTAAATAGGTGATAGTGCTGCGCTTTATTTATAATAGGCTAAAAGATTCCCTCAGCCTTTCTTTTTACCTATTTTTTTACTTGCTTAGCTTTGAAATCCATACATTTCAGAAATGTAGGTGGATCTCATGCCTTCAGTAGTTAGGAAATACAGTGCAGAGTGGTCATAAATGATGACGTTTCCTAAGAAATACTGTGGTATTGTGTAGAATCCATTTATTGTCCCAAATAGTCACATAGTCATCAGTTAAATCCTTGAAGGTAGAGTTAGATTACTTCAGAACTCTGAGGCCCTTAAATACATGTCATAGGAAGTTTGTCTCTGGTACCTAAAAAGACATGAGACCTAATGTGTTAATTTCGTTTTGTTTTTTTGGTTTTTTTTTCCCATCTGTTAAGAATTTTTATGAAACTTCTAATACTGAGATAGGCTCTTGGTGGCAGTGTAATTTATAACTGGTTGTTGTTCTCTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTTGGTGGCAGTGTAA
60.25
AGGTAGTCAACACTGAGCAA
56.41
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATAGGCTCTTGGTGGCAGTG
59.75
AGGTAGTCAACACTGAGCAA
56.41
146
PCR template sequence:
TGGTTTTTTTTTCCCATCTGTTAAGAATTTTTATGAAACTTCTAATACTGAGATAGGCTCTTGGTGGCAGTGTAATTTATAACTGGTTGTTGTTCTCTCTGTAAGTAAGCATGAACATTCGGCCAGCTGCACGATTTCAGTACTTTTACAGACTGCCTTAAGACTGCAGTCGTTTTATTTGCTCAGTGTTGACTACCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-203-3p(2), mmu-miR-20b-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-324-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTGTTCTCTCTGTAAGTAAGCATG
siRNA sets
TTACTTACAGAGAGAACAA,CATGCTTACTTACAGAGAG,ACTTACAGAGAGAACAACA
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
0.897664588
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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