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mmu_circCyth1_148
Basic information of circular RNA
PanCircBase ID:
mmu_circCyth1_148
mm39_Chr. Position ID:
chr11|118083222|118084523|-
Gene name:
Cyth1
Transcript:
ENSMUST00000100181.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,1218
Genomic length:
1301
Exon/intron sizes in nt:
65,83
Flanking exon/introns:
chr11:118076652-118083222|chr11:118084523-118139264
Splice length:
148
Other database IDs:
circBase: hsa_circ_0045917, circAtlas: hsa-CYTH1_0015, CIRCpedia: HSA_CIRCpedia_22584
Human Ortholog IDs:
Mature spliced Sequence:
TCCCCAGTGACCTGACTGCAGAAGAGCGTCAAGAACTGGAGAACATCCGGCGGAGGAAGCAGGAGCTGCTGGCTGACATCCAGAGGCTAAAGGAAGAGATAGCAGAAGTTGCTAATGAAATTGAAAGCCTGGGATCCACAGAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACATCCAGAGGCTAAAGGAAGA
59.55
GCCGGATGTTCTCCAGTTCT
59.75
125
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATCCAGAGGCTAAAGGAAGAG
59.55
GCCGGATGTTCTCCAGTTCT
59.75
124
PCR template sequence:
GACATCCAGAGGCTAAAGGAAGAGATAGCAGAAGTTGCTAATGAAATTGAAAGCCTGGGATCCACAGAGGAAAGTCCCCAGTGACCTGACTGCAGAAGAGCGTCAAGAACTGGAGAACATCCGGCGGAGGAAGCAGGAGCTGCTGGCT
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
CCACAGAGGAAAGTCCCCAGTGACCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCYTH1_148_ORF_1
1.0439
0.452357112
0.460000395
180
ORF sequence:
ATGAAATTGAAAGCCTGGGATCCACAGAGGAAAGTCCCCAGTGACCTGACTGCAGAAGAGCGTCAAGAACTGGAGAACATCCGGCGGAGGAAGCAGGAGCTGCTGGCTGACATCCAGAGGCTAAAGGAAGAGATAGCAGAAGTTGCTAATGAAATTGAAAGCCTGGGATCCACAGAGGAA
Peptide sequence:
MKLKAWDPQRKVPSDLTAEERQELENIRRRKQELLADIQRLKEEIAEVANEIESLGSTEE
IRESfinder result
IRESfinder score
0.239482941
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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