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mmu_circAfap1_224
Basic information of circular RNA
PanCircBase ID:
mmu_circAfap1_224
mm39_Chr. Position ID:
chr5|36092895|36093476|+
Gene name:
Afap1
Transcript:
ENSMUST00000064571.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,486
Genomic length:
581
Exon/intron sizes in nt:
129,95
Flanking exon/introns:
chr5:36050884-36092895|chr5:36093476-36102531
Splice length:
224
Other database IDs:
circBase: mmu_circ_0012596, CIRCpedia: MMU_CIRCpedia_17950, circAtlas: mmu-Afap1_0002
circBase: hsa_circ_0069152, circAtlas: hsa-AFAP1_0003, CIRCpedia: HSA_CIRCpedia_49194
Human Ortholog IDs:
Mature spliced Sequence:
CAATGGAAGAGTTAATAGTTGAACTCCGCCTCTTTCTGGAGCTCCTGGACCACGAGTACCTCACATCAACTGTCAGAGAGAAAAAGGCTGTGCTCACCAACATCCTGCTGCGCCTGCAGTCATCCAAGGGCTTTGAAGTGAAGGACCATGCTCAGAAGGCAGAGGCCAACAACCTGCCGGCACCACCCCAGATGCCTCTGCCGGAGATCCCTCAGCCATGGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGACCATGCTCAGAAGGC
60.03
TACTCGTGGTCCAGGAGCTC
60.68
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGACCATGCTCAGAAGGC
60.03
GTACTCGTGGTCCAGGAGCT
60.97
143
PCR template sequence:
CAAGGGCTTTGAAGTGAAGGACCATGCTCAGAAGGCAGAGGCCAACAACCTGCCGGCACCACCCCAGATGCCTCTGCCGGAGATCCCTCAGCCATGGCTGCAATGGAAGAGTTAATAGTTGAACTCCGCCTCTTTCTGGAGCTCCTGGACCACGAGTACCTCACATCAACTGTCAGAGAGAAAAAGGCTGTGCTCACCAA
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
TCAGCCATGGCTGCAATGGAAGAGTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAFAP1_224_ORF_1
1.2641
0.384210239
0.593470856
237
ORF sequence:
ATGGAAGAGTTAATAGTTGAACTCCGCCTCTTTCTGGAGCTCCTGGACCACGAGTACCTCACATCAACTGTCAGAGAGAAAAAGGCTGTGCTCACCAACATCCTGCTGCGCCTGCAGTCATCCAAGGGCTTTGAAGTGAAGGACCATGCTCAGAAGGCAGAGGCCAACAACCTGCCGGCACCACCCCAGATGCCTCTGCCGGAGATCCCTCAGCCATGGCTGCAATGGAAGAGTTAA
Peptide sequence:
MEELIVELRLFLELLDHEYLTSTVREKKAVLTNILLRLQSSKGFEVKDHAQKAEANNLPAPPQMPLPEIPQPWLQWKS
IRESfinder result
IRESfinder score
0.413962489
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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