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mmu_circAgo4_302
Basic information of circular RNA
PanCircBase ID:
mmu_circAgo4_302
mm39_Chr. Position ID:
chr4|126390541|126391105|-
Gene name:
Ago4
Transcript:
ENSMUST00000084289.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
17,16
Exon/intron offsets:
0,462
Genomic length:
564
Exon/intron sizes in nt:
2,00,102
Flanking exon/introns:
chr4:126387124-126390541|chr4:126391105-126400536
Splice length:
302
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6657, circAtlas: mmu-Ago4_0002
circAtlas: hsa-AGO4_0003, CIRCpedia: HSA_CIRCpedia_31597
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGGAAAAGTGGCAATGTCCCAGCAGGCACCACAGTGGATAGCACCGTCACACACCCGTCTGAGTTTGACTTTTACCTCTGTAGTCATGCAGGAATTCAGGGAACCAGCCGTCCTTCACATTACCAGGTCTTGTGGGATGACAACTGCTTCACTGCAGATGAACTCCAGCTACTGACTTACCAGCTCTGTCACACCTACGTGAGGTGCACACGCTCCGTCTCCATTCCTGCCCCTGCATATTATGCCCGGCTTGTGGCATTCCGGGCAAGGTATCATTTGGTGGATAAAGATCATGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACACGCTCCGTCTCCATTC
61.08
TGTGTGACGGTGCTATCCAC
60.04
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACGCTCCGTCTCCATTC
61.08
GTGTGTGACGGTGCTATCCA
60.04
150
PCR template sequence:
TGAGGTGCACACGCTCCGTCTCCATTCCTGCCCCTGCATATTATGCCCGGCTTGTGGCATTCCGGGCAAGGTATCATTTGGTGGATAAAGATCATGACAGGTGGGGAAAAGTGGCAATGTCCCAGCAGGCACCACAGTGGATAGCACCGTCACACACCCGTCTGAGTTTGACTTTTACCTCTGTAGTCATGCAGGAATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGATCATGACAGGTGGGGAAAAGTG
siRNA sets
TTTTCCCCACCTGTCATGA,CTTTTCCCCACCTGTCATG,TTTCCCCACCTGTCATGAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGO4_302_ORF_3
0.8811
-0.250012788
0.019746752
102
ORF sequence:
ATGCCCGGCTTGTGGCATTCCGGGCAAGGTATCATTTGGTGGATAAAGATCATGACAGGTGGGGAAAAGTGGCAATGTCCCAGCAGGCACCACAGTGGATAG
Peptide sequence:
MPGLWHSGQGIIWWIKIMTGGEKWQCPSRHHSG
IRESfinder result
IRESfinder score
0.548993078
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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