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mmu_circAfg3l2_200
Basic information of circular RNA
PanCircBase ID:
mmu_circAfg3l2_200
mm39_Chr. Position ID:
chr18|67564723|67567299|-
Gene name:
Afg3l2
Transcript:
ENSMUST00000025408.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,6
Exon/intron offsets:
0,2501
Genomic length:
2576
Exon/intron sizes in nt:
125,75
Flanking exon/introns:
chr18:67562324-67564723|chr18:67567299-67573251
Splice length:
200
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219830, circAtlas: mmu-Afg3l2_0006
circAtlas: hsa-AFG3L2_0007
Human Ortholog IDs:
Mature spliced Sequence:
GTGGACAGACTAGAAGTTGTCAACAAGCGTTTTGTTCGTGTGACCTTTACACCAGGAAAAACTCCGGTTGATGGGCAATACGTCTGGTTTAATATTGGCAGTGTTGACACATTTGAGCGGAATCTGGAGACTTTGCAGCAAGAATTGGGCATAGAAGGGGAGAACCGGGTCCCTGTGGTTTATATTGCTGAGAGCGATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGAATCTGGAGACTTTGC
59.27
ATTGCCCATCAACCGGAGTT
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGAATCTGGAGACTTTGC
59.27
TGCCCATCAACCGGAGTTTT
60.18
161
PCR template sequence:
GTGTTGACACATTTGAGCGGAATCTGGAGACTTTGCAGCAAGAATTGGGCATAGAAGGGGAGAACCGGGTCCCTGTGGTTTATATTGCTGAGAGCGATGGGTGGACAGACTAGAAGTTGTCAACAAGCGTTTTGTTCGTGTGACCTTTACACCAGGAAAAACTCCGGTTGATGGGCAATACGTCTGGTTTAATATTGGCA
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-200a-3p(1), mmu-miR-141-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAGAGCGATGGGTGGACAGACTAG
siRNA sets
TAGTCTGTCCACCCATCGC,CTAGTCTGTCCACCCATCG,AGTCTGTCCACCCATCGCT
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
0.660626323
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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