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mmu_circDcaf1_195
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf1_195
mm39_Chr. Position ID:
chr9|106706259|106708133|+
Gene name:
Dcaf1
Transcript:
ENSMUST00000159645.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,1797
Genomic length:
1874
Exon/intron sizes in nt:
118,77
Flanking exon/introns:
chr9:106699290-106706259|chr9:106708133-106711347
Splice length:
195
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1870, circAtlas: mmu-Vprbp_0014
circBase: hsa_circ_0065917, circAtlas: hsa-DCAF1_0021, CIRCpedia: HSA_CIRCpedia_46265
Human Ortholog IDs:
Mature spliced Sequence:
GCCAAGTCATGACTACAGTAGTGGTACATGTGGACTCCAAAGCTGAGCTCACTACCCTGCTGGAGCAGTGGGAAAAGGACCATGGCAGTGGCCAGGATATGGTACCAATCCTTACCAGAATGTCTGAATTAATTGAAAAAGAAACTGAAGAATATCGTAAAGGAGATCCAGATCCATTTGATGATCGACATCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTAAAGGAGATCCAGATCCA
58.09
GTCCTTTTCCCACTGCTCCA
59.89
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTAAAGGAGATCCAGATCCA
58.09
TGGTCCTTTTCCCACTGCTC
59.89
123
PCR template sequence:
ATGGTACCAATCCTTACCAGAATGTCTGAATTAATTGAAAAAGAAACTGAAGAATATCGTAAAGGAGATCCAGATCCATTTGATGATCGACATCCTGGCCAAGTCATGACTACAGTAGTGGTACATGTGGACTCCAAAGCTGAGCTCACTACCCTGCTGGAGCAGTGGGAAAAGGACCATGGCAGTGGCCAGGA
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
GATCGACATCCTGGCCAAGTCATGAC
siRNA sets
CATGACTTGGCCAGGATGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF1_195_ORF_1
1.1338
0.279563151
0.678887822
381
ORF sequence:
ATGACTACAGTAGTGGTACATGTGGACTCCAAAGCTGAGCTCACTACCCTGCTGGAGCAGTGGGAAAAGGACCATGGCAGTGGCCAGGATATGGTACCAATCCTTACCAGAATGTCTGAATTAATTGAAAAAGAAACTGAAGAATATCGTAAAGGAGATCCAGATCCATTTGATGATCGACATCCTGGCCAAGTCATGACTACAGTAGTGGTACATGTGGACTCCAAAGCTGAGCTCACTACCCTGCTGGAGCAGTGGGAAAAGGACCATGGCAGTGGCCAGGATATGGTACCAATCCTTACCAGAATGTCTGAATTAATTGAAAAAGAAACTGAAGAATATCGTAAAGGAGATCCAGATCCATTTGATGATCGACATCCT
Peptide sequence:
MTTVVVHVDSKAELTTLLEQWEKDHGSGQDMVPILTRMSELIEKETEEYRKGDPDPFDDRHPGQVMTTVVVHVDSKAELTTLLEQWEKDHGSGQDMVPILTRMSELIEKETEEYRKGDPDPFDDRHP
IRESfinder result
IRESfinder score
0.411603508
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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