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mmu_circUba6_394
Basic information of circular RNA
PanCircBase ID:
mmu_circUba6_394
mm39_Chr. Position ID:
chr5|86307062|86318476|-
Gene name:
Uba6
Transcript:
ENSMUST00000039373.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1075,4875,5493,11351
Genomic length:
11414
Exon/intron sizes in nt:
112,95,29,95,63
Flanking exon/introns:
chr5:86302293-86307062|chr5:86318476-86320526
Splice length:
394
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_48990
Human Ortholog IDs:
Mature spliced Sequence:
TGCAAGTAAAAATTTACCTACCATGACAACAGAATCTTTGGAAATCGATGATGGATTATACAGTCGCCAGAGATATGTTCTTGGTGACACAGCAATGCAGAAGATGGCCAAGTCCTGTGTCTTCTTAAGTGGTATGGGTGGTCTTGGAGTGGAAATTGCAAAGAATCTTGTTCTTGCAGGGATTAAGGCCCTAACAATTCATGATACAAAAAAATGCCAAGCATGGGATCTAGGGACCAATTTCTTCCTGTGTGAAGATGATGTTGTTAATGAGAGAAACAGGGCTGAAGCTGTACTTCATCGTATTGCAGAACTAAATCCATATGTTCAGGTCTCATCATCCTCTGCCCCTCTTGATGAAACCACAGACCTCTCTTTCTTAGAAAAATATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCTGCCCCTCTTGATGA
59.96
TGCATTGCTGTGTCACCAAG
59.33
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCTGCCCCTCTTGATGA
59.96
CTGCATTGCTGTGTCACCAA
59.33
154
PCR template sequence:
ACTTCATCGTATTGCAGAACTAAATCCATATGTTCAGGTCTCATCATCCTCTGCCCCTCTTGATGAAACCACAGACCTCTCTTTCTTAGAAAAATATCAGTGCAAGTAAAAATTTACCTACCATGACAACAGAATCTTTGGAAATCGATGATGGATTATACAGTCGCCAGAGATATGTTCTTGGTGACACAGCAATGCAG
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-33-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-377-3p(1), mmu-miR-300-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAAAATATCAGTGCAAGTAAAAAT
siRNA sets
ATTTTTACTTGCACTGATA, TTTTACTTGCACTGATATT, TTTACTTGCACTGATATTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBA6_394_ORF_1
0.904
0.025929046
0.326295979
381
ORF sequence:
ATGACAACAGAATCTTTGGAAATCGATGATGGATTATACAGTCGCCAGAGATATGTTCTTGGTGACACAGCAATGCAGAAGATGGCCAAGTCCTGTGTCTTCTTAAGTGGTATGGGTGGTCTTGGAGTGGAAATTGCAAAGAATCTTGTTCTTGCAGGGATTAAGGCCCTAACAATTCATGATACAAAAAAATGCCAAGCATGGGATCTAGGGACCAATTTCTTCCTGTGTGAAGATGATGTTGTTAATGAGAGAAACAGGGCTGAAGCTGTACTTCATCGTATTGCAGAACTAAATCCATATGTTCAGGTCTCATCATCCTCTGCCCCTCTTGATGAAACCACAGACCTCTCTTTCTTAGAAAAATATCAGTGCAAGTAA
Peptide sequence:
MTTESLEIDDGLYSRQRYVLGDTAMQKMAKSCVFLSGMGGLGVEIAKNLVLAGIKALTIHDTKKCQAWDLGTNFFLCEDDVVNERNRAEAVLHRIAELNPYVQVSSSSAPLDETTDLSFLEKYQCK
IRESfinder result
IRESfinder score
0.614491129
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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