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mmu_circMllt3_181
Basic information of circular RNA
PanCircBase ID:
mmu_circMllt3_181
mm39_Chr. Position ID:
chr4|87949760|87949941|-
Gene name:
Mllt3
Transcript:
ENSMUST00000078090.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
181
Exon/intron sizes in nt:
181
Flanking exon/introns:
chr4:87798385-87949760|chr4:87949941-87951320
Splice length:
181
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32990, circAtlas: mmu-Mllt3_0009
Human Ortholog IDs:
Mature spliced Sequence:
TGTGCCGTGCAGGTGAAGCTGGAGCTGGGGCACCGCGCCCAGGTGAGGAAGAAACCCACAGTGGAGGGCTTCACCCACGACTGGATGGTGTTCGTGCGCGGCCCGGAGCACAGTAACATTCAGCACTTTGTGGAGAAAGTCGTCTTCCACTTGCACGAAAGCTTCCCTAGGCCAAAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCGGAGCACAGTAACATT
60.68
GGGTTTCTTCCTCACCTGGG
59.96
138
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCGGAGCACAGTAACAT
60.08
GGGTTTCTTCCTCACCTGGG
59.96
138
PCR template sequence:
TCGTGCGCGGCCCGGAGCACAGTAACATTCAGCACTTTGTGGAGAAAGTCGTCTTCCACTTGCACGAAAGCTTCCCTAGGCCAAAAAGAGTGTGCCGTGCAGGTGAAGCTGGAGCTGGGGCACCGCGCCCAGGTGAGGAAGAAACCCACAGTGGAGGGCTTCACCCACGACTGGATGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCCAAAAAGAGTGTGCCGTGCAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMLLT3_181_ORF_1
1.1473
0.141515519
0.268484219
213
ORF sequence:
ATGGTGTTCGTGCGCGGCCCGGAGCACAGTAACATTCAGCACTTTGTGGAGAAAGTCGTCTTCCACTTGCACGAAAGCTTCCCTAGGCCAAAAAGAGTGTGCCGTGCAGGTGAAGCTGGAGCTGGGGCACCGCGCCCAGGTGAGGAAGAAACCCACAGTGGAGGGCTTCACCCACGACTGGATGGTGTTCGTGCGCGGCCCGGAGCACAGTAA
Peptide sequence:
MVFVRGPEHSNIQHFVEKVVFHLHESFPRPKRVCRAGEAGAGAPRPGEEETHSGGLHPRLDGVRARPGAQ
IRESfinder result
IRESfinder score
0.318919727
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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