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mmu_circA230057D06Rik_240
Basic information of circular RNA
PanCircBase ID:
mmu_circA230057D06Rik_240
mm39_Chr. Position ID:
chr7|61561110|61563083|-
Gene name:
A230057D06Rik
Transcript:
ENSMUST00000231418.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,1844
Genomic length:
1973
Exon/intron sizes in nt:
1,11,129
Flanking exon/introns:
chr7:61364492-61561110|chr7:61563083-61563848
Splice length:
240
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAAACATGTTCCTCCAGCTGAAGTCACTGCTCCTGCTTTAAGATACATTGTCCCTGTCACAGTTTTGGATCATTCATCATTTTCAAAGAAAAGGATATACTTCAGGAACCAGTATCTGACAAAACGAGGAGTCTTGCTGTCCTGTTCACTGAGTTCTCCAACTCATCCCTGAAACCACGCCTCCTCTCAGCTTCATGAGAAACTCACAGTACAGAGGCAGAGCACCACATTCAGCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATCCCTGAAACCACGC
60.32
TCCAAAACTGTGACAGGGACA
59.44
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAAACCACGCCTCCTCTC
60.39
TCCAAAACTGTGACAGGGACA
59.44
141
PCR template sequence:
CCTGTTCACTGAGTTCTCCAACTCATCCCTGAAACCACGCCTCCTCTCAGCTTCATGAGAAACTCACAGTACAGAGGCAGAGCACCACATTCAGCTGATGAAAACATGTTCCTCCAGCTGAAGTCACTGCTCCTGCTTTAAGATACATTGTCCCTGTCACAGTTTTGGATCATTCATCATTTTCAAAGAAAAGGATATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-127-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTCAGCTGATGAAAACATGTTCCT
siRNA sets
GAACATGTTTTCATCAGCT,AACATGTTTTCATCAGCTG,GGAACATGTTTTCATCAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCA230057D06RIK_240_ORF_1
0.9215
-0.026818832
0.046419431
87
ORF sequence:
ATGAGAAACTCACAGTACAGAGGCAGAGCACCACATTCAGCTGATGAAAACATGTTCCTCCAGCTGAAGTCACTGCTCCTGCTTTAA
Peptide sequence:
MRNSQYRGRAPHSADENMFLQLKSLLLL
IRESfinder result
IRESfinder score
0.85900773
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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