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mmu_circJmjd8_286
Basic information of circular RNA
PanCircBase ID:
mmu_circJmjd8_286
mm39_Chr. Position ID:
chr17|26048579|26049035|+
Gene name:
Jmjd8
Transcript:
ENSMUST00000133595.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,179,336
Genomic length:
456
Exon/intron sizes in nt:
97,69,120
Flanking exon/introns:
chr17:26048506-26048579|chr17:26049035-26049112
Splice length:
286
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14654, circAtlas: mmu-Jmjd8_0002
Human Ortholog IDs:
Mature spliced Sequence:
AAGTTCCGGGCCCTGTGTTCCCGGGAAAACCTGCTAGCCTCGTTCGGGGACAACATTGTTCGCTTGAGTACAGCCAACACCTACTCCTACCAGAAAGTGGACCTGCCCTTCCAGGAATATGTGGAACAGCTGCTGCAGCCCCAGGATCCTGCATCCCTAGGCAATGACACCCTGTACTTTTTTGGAGACAACAACTTCACTGAGTGGGCATCCCTCTTCCAGCACTACTCTCCGCCACCATTCCGTCTCCTGGGAACCACCCCTGCTTACAGCTTTGGAATTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGTGGGCATCCCTCTTC
59.82
ACAATGTTGTCCCCGAACGA
59.89
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTCACTGAGTGGGCATCC
59.67
ACAATGTTGTCCCCGAACGA
59.89
152
PCR template sequence:
GACAACAACTTCACTGAGTGGGCATCCCTCTTCCAGCACTACTCTCCGCCACCATTCCGTCTCCTGGGAACCACCCCTGCTTACAGCTTTGGAATTGCAGAAGTTCCGGGCCCTGTGTTCCCGGGAAAACCTGCTAGCCTCGTTCGGGGACAACATTGTTCGCTTGAGTACAGCCAACACCTACTCCTACCAGAAAGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGGAATTGCAGAAGTTCCGGGCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCJMJD8_286_ORF_1
0.8388
0.253652105
0.570696895
408
ORF sequence:
ATGACACCCTGTACTTTTTTGGAGACAACAACTTCACTGAGTGGGCATCCCTCTTCCAGCACTACTCTCCGCCACCATTCCGTCTCCTGGGAACCACCCCTGCTTACAGCTTTGGAATTGCAGAAGTTCCGGGCCCTGTGTTCCCGGGAAAACCTGCTAGCCTCGTTCGGGGACAACATTGTTCGCTTGAGTACAGCCAACACCTACTCCTACCAGAAAGTGGACCTGCCCTTCCAGGAATATGTGGAACAGCTGCTGCAGCCCCAGGATCCTGCATCCCTAGGCAATGACACCCTGTACTTTTTTGGAGACAACAACTTCACTGAGTGGGCATCCCTCTTCCAGCACTACTCTCCGCCACCATTCCGTCTCCTGGGAACCACCCCTGCTTACAGCTTTGGAATTGCA
Peptide sequence:
MTPCTFLETTTSLSGHPSSSTTLRHHSVSWEPPLLTALELQKFRALCSRENLLASFGDNIVRLSTANTYSYQKVDLPFQEYVEQLLQPQDPASLGNDTLYFFGDNNFTEWASLFQHYSPPPFRLLGTTPAYSFGIA
IRESfinder result
IRESfinder score
0.7272092
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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