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mmu_circUba6_288_2
Basic information of circular RNA
PanCircBase ID:
mmu_circUba6_288_2
mm39_Chr. Position ID:
chr5|86302212|86308232|-
Gene name:
Uba6
Transcript:
ENSMUST00000039373.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,4850,5925
Genomic length:
6020
Exon/intron sizes in nt:
81,112,95
Flanking exon/introns:
chr5:86300807-86302212|chr5:86308232-86311937
Splice length:
288
Other database IDs:
circBase: hsa_circ_0069900, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_116859
Human Ortholog IDs:
Mature spliced Sequence:
GCCCTAACAATTCATGATACAAAAAAATGCCAAGCATGGGATCTAGGGACCAATTTCTTCCTGTGTGAAGATGATGTTGTTAATGAGAGAAACAGGGCTGAAGCTGTACTTCATCGTATTGCAGAACTAAATCCATATGTTCAGGTCTCATCATCCTCTGCCCCTCTTGATGAAACCACAGACCTCTCTTTCTTAGAAAAATATCAGTGTGTAGTATTGACTGAAATAAAACTGACATTACAAAAGAAGATCAACAATTTTTGCCATTCTCATTGCCCTCCAATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAGTGTGTAGTATTGACTGAA
55.11
ATTGGTCCCTAGATCCCATGC
59.29
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATATCAGTGTGTAGTATTGACTGAA
55.59
TGGTCCCTAGATCCCATGCT
59.73
140
PCR template sequence:
TTTCTTAGAAAAATATCAGTGTGTAGTATTGACTGAAATAAAACTGACATTACAAAAGAAGATCAACAATTTTTGCCATTCTCATTGCCCTCCAATTAAGGCCCTAACAATTCATGATACAAAAAAATGCCAAGCATGGGATCTAGGGACCAATTTCTTCCTGTGTGAAGATGATGTTGTTAATGAGAGAAACAGGGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-29b-2-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTCCAATTAAGGCCCTAACAATTC
siRNA sets
TTGTTAGGGCCTTAATTGG, TGTTAGGGCCTTAATTGGA, ATTGTTAGGGCCTTAATTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.799319047
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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