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mmu_circAgps_316
Basic information of circular RNA
PanCircBase ID:
mmu_circAgps_316
mm39_Chr. Position ID:
chr2|75692277|75698757|+
Gene name:
Agps
Transcript:
ENSMUST00000047232.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,4813,6371
Genomic length:
6480
Exon/intron sizes in nt:
8,11,26,109
Flanking exon/introns:
chr2:75689322-75692277|chr2:75698757-75707814
Splice length:
316
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213296, circAtlas: mmu-Agps_0021
circAtlas: hsa-AGPS_0021, CIRCpedia: HSA_CIRCpedia_117928
Human Ortholog IDs:
Mature spliced Sequence:
AACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATTGTACAGGTCATGAACCGGACTCCCTGGAATTCAGCACCGTGGGAGGATGGATATCTACTCGAGCGTCAGGCATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAAAAGCTCCCAAGGACC
59.65
ATCTTGTCCTGTTATCCCAGCC
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCCCAAGGACCTCGTAT
60.03
GCTGTCTTTCCAAATCTTGTCCT
59.18
146
PCR template sequence:
ATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGAACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ATGGGATCTGAAGAACCGGATTCTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGPS_316_ORF_1
0.92
0.083943543
0.117832276
165
ORF sequence:
ATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGAACCGGATTCTCTGGGTTGA
Peptide sequence:
MKKNIYGNIEDLVVHMKMVTPRGVIEKSSQGPRMSTGPDIHHFIMGSEEPDSLG
IRESfinder result
IRESfinder score
0.53043772
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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