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mmu_circAgap1_284
Basic information of circular RNA
PanCircBase ID:
mmu_circAgap1_284
mm39_Chr. Position ID:
chr1|89591382|89592911|+
Gene name:
Agap1
Transcript:
ENSMUST00000027521.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,1373
Genomic length:
1529
Exon/intron sizes in nt:
1,28,156
Flanking exon/introns:
chr1:89562016-89591382|chr1:89592911-89598900
Splice length:
284
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33487, circAtlas: mmu-Agap1_0010
circBase: hsa_circ_0058805, circAtlas: hsa-AGAP1_0010, CIRCpedia: HSA_CIRCpedia_40119
Human Ortholog IDs:
Mature spliced Sequence:
TTGCCCAGAAGATCGTTGCCACAAGGAAGAAGCAGCAGCTATCCATAGGCCCCTGCAAGTCCTTACCCAACTCTCCAAGCCACTCGTCTGTGTGTTCTGCCCAAGTGTCCGCGGTACACATCAGCCAGACAAGTAACGGAGGTGGGAGTTTAAGTGACTACTCATCCTCTGTTCCTTCGACCCCAAGCACCAGCCAGAAAGAGCTTCGGATCGACGTCCCTCCCACTGCCAACACTCCAACGCCTGTCCGGAAGCAGTCCAAGCGCAGGTCCAACCTATTCACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCAGAAAGAGCTTCGGA
60.04
GGGCCTATGGATAGCTGCTG
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGCTTCGGATCGACGTC
59.9
ACGAGTGGCTTGGAGAGTTG
59.97
173
PCR template sequence:
AAGCACCAGCCAGAAAGAGCTTCGGATCGACGTCCCTCCCACTGCCAACACTCCAACGCCTGTCCGGAAGCAGTCCAAGCGCAGGTCCAACCTATTCACATTGCCCAGAAGATCGTTGCCACAAGGAAGAAGCAGCAGCTATCCATAGGCCCCTGCAAGTCCTTACCCAACTCTCCAAGCCACTCGTCTGTGTGTTCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-138-5p(1), mmu-miR-705(1), mmu-miR-5101(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACCTATTCACATTGCCCAGAAGAT
siRNA sets
ATCTTCTGGGCAATGTGAA, TTCTGGGCAATGTGAATAG
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
0.406118596
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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