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mmu_circAtf2_357
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf2_357
mm39_Chr. Position ID:
chr2|73658815|73660285|-
Gene name:
Atf2
Transcript:
ENSMUST00000124737.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,1320
Genomic length:
1470
Exon/intron sizes in nt:
2,07,150
Flanking exon/introns:
chr2:73649492-73658815|chr2:73660285-73672703
Splice length:
357
Other database IDs:
circBase: mmu_circ_0010172, CIRCpedia: MMU_CIRCpedia_37633, circAtlas: mmu-Atf2_0012
circBase: hsa_circ_0118148, circAtlas: hsa-ATF2_0013, CIRCpedia: HSA_CIRCpedia_93089
Human Ortholog IDs:
Mature spliced Sequence:
AGATTAAAAGCTGCTTTGACCCAGCAACACCCTCCAGTTACCAATGGTGATACTGTAAAAGGCCATGGCAGTGGATTGGTTAGGACTCAGTCAGAAGAGTCTCGCCCACAGTCCTTGCAGCAGCCAGCCACCTCCACTACAGAAACTCCGGCTTCTCCAGCTCACACAACTCCTCAGACCCAAAATACAAGTGGCCGTCGAAGAAGAGCAGCTAATGAAGATCCTGATGAGAAAAGGAGGAAGTTTCTAGAACGAAATAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGTGTGGGTTCAGTCCT
59.86
ATCCACTGCCATGGCCTTTT
60.25
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGTGTGGGTTCAGTCCT
59.86
AATCCACTGCCATGGCCTTT
60.25
145
PCR template sequence:
TAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAGAGATTAAAAGCTGCTTTGACCCAGCAACACCCTCCAGTTACCAATGGTGATACTGTAAAAGGCCATGGCAGTGGATTGGTTAGGACTCAGTCAGAAGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(1), mmu-miR-1199-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCAGCTGCAGAGATTAAAAGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF2_357_ORF_3
0.6377
-0.115730269
0.026738565
132
ORF sequence:
ATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAGAGATTAAAAGCTGCTTTGACCCAGCAACACCCTCCAGTTACCAATGGTGA
Peptide sequence:
MPTKKESVGSVLREESRRLEFTKWPAAEIKSCFDPATPSSYQW
IRESfinder result
IRESfinder score
0.422981575
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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