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mmu_circUnc80_348
Basic information of circular RNA
PanCircBase ID:
mmu_circUnc80_348
mm39_Chr. Position ID:
chr1|66692454|66693761|+
Gene name:
Unc80
Transcript:
ENSMUST00000061620.17
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
49,50,51
Exon/intron offsets:
0,714,1088
Genomic length:
1307
Exon/intron sizes in nt:
93,36,219
Flanking exon/introns:
chr1:66690789-66692454|chr1:66693761-66708254
Splice length:
348
Other database IDs:
circBase: hsa_circ_0118997, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135344
Human Ortholog IDs:
Mature spliced Sequence:
GCCCATGACAGCCCCACAGATGAGCAGGAGTGACCAAGGTCACAAGGGAACCACCACAGCCAACCATACCATGTCGTCTGGAGTGAACACCAGGTACCCGGAGCAAGGAGCCAAGCTGCACTTTATCAGGGAAAACCTCCATTTACTAGAGGAAGGGCAAGGCCTTCCCAGAGAAGAACTAGATGAACGAATTTCTCGAGAAGAATTCAGAAGACCCCGGGAATCTCTGCTGAACATTTGCACGGAATTCTATAAGCACTGCGGGCCGAGGCTGAAGATCCTGCAAAACCTAGCTGGGGAGCCACGGGTCACTGCCCTGGAGCTGCTGGATGTGAAGTCTCACATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGGCTGAAGATCCTGCAA
60.11
TGTGGTGGTTCCCTTGTGAC
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGCAAAACCTAGCTGGG
59.96
TGGTATGGTTGGCTGTGGTG
60.25
141
PCR template sequence:
TCTATAAGCACTGCGGGCCGAGGCTGAAGATCCTGCAAAACCTAGCTGGGGAGCCACGGGTCACTGCCCTGGAGCTGCTGGATGTGAAGTCTCACATGAGGCCCATGACAGCCCCACAGATGAGCAGGAGTGACCAAGGTCACAAGGGAACCACCACAGCCAACCATACCATGTCGTCTGGAGTGAACACCAGGTACCCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(1), mmu-miR-34a-5p(1), mmu-miR-19a-3p(1), mmu-miR-758-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGTCTCACATGAGGCCCATGACAGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUNC80_348_ORF_1
0.9798
0.296094163
0.940057217
690
ORF sequence:
ATGACAGCCCCACAGATGAGCAGGAGTGACCAAGGTCACAAGGGAACCACCACAGCCAACCATACCATGTCGTCTGGAGTGAACACCAGGTACCCGGAGCAAGGAGCCAAGCTGCACTTTATCAGGGAAAACCTCCATTTACTAGAGGAAGGGCAAGGCCTTCCCAGAGAAGAACTAGATGAACGAATTTCTCGAGAAGAATTCAGAAGACCCCGGGAATCTCTGCTGAACATTTGCACGGAATTCTATAAGCACTGCGGGCCGAGGCTGAAGATCCTGCAAAACCTAGCTGGGGAGCCACGGGTCACTGCCCTGGAGCTGCTGGATGTGAAGTCTCACATGAGGCCCATGACAGCCCCACAGATGAGCAGGAGTGACCAAGGTCACAAGGGAACCACCACAGCCAACCATACCATGTCGTCTGGAGTGAACACCAGGTACCCGGAGCAAGGAGCCAAGCTGCACTTTATCAGGGAAAACCTCCATTTACTAGAGGAAGGGCAAGGCCTTCCCAGAGAAGAACTAGATGAACGAATTTCTCGAGAAGAATTCAGAAGACCCCGGGAATCTCTGCTGAACATTTGCACGGAATTCTATAAGCACTGCGGGCCGAGGCTGAAGATCCTGCAAAACCTAGCTGGGGAGCCACGGGTCACTGCCCTGGAGCTGCTGGATGTGAAGTCTCACATG
Peptide sequence:
MTAPQMSRSDQGHKGTTTANHTMSSGVNTRYPEQGAKLHFIRENLHLLEEGQGLPREELDERISREEFRRPRESLLNICTEFYKHCGPRLKILQNLAGEPRVTALELLDVKSHMRPMTAPQMSRSDQGHKGTTTANHTMSSGVNTRYPEQGAKLHFIRENLHLLEEGQGLPREELDERISREEFRRPRESLLNICTEFYKHCGPRLKILQNLAGEPRVTALELLDVKSHM
IRESfinder result
IRESfinder score
0.365134945
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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