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mmu_circUsp14_399
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp14_399
mm39_Chr. Position ID:
chr18|10009951|10018095|-
Gene name:
Usp14
Transcript:
ENSMUST00000092096.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,2261,6589,8039
Genomic length:
8144
Exon/intron sizes in nt:
13,15,91,04,105
Flanking exon/introns:
chr18:10007847-10009951|chr18:10018095-10022817
Splice length:
399
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218733, circAtlas: mmu-Usp14_0019
Human Ortholog IDs:
Mature spliced Sequence:
GGAATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAACCGCTATGGAATTGCCATGTGGATTGACAAACCTTGGTAACACTTGTTACATGAATGCTACAGTTCAGTGTATTCGTTCTGTGCCTGAACTCAAAGATGCCCTTAAAAGGTATGCAGGTGCGTTGAGAGCTTCAGGAGAAATGGCTTCAGCACAGTATATTACTGCAGCTCTTAGAGATTTGTTTGATTCCATGGATAAAACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCACCTATTATTCTGCTGCA
59.22
GCAGAGGGTTCTTCTGGAAGA
59.37
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCACCTATTATTCTGCTGCA
59.22
AGCAGAGGGTTCTTCTGGAAG
59.37
143
PCR template sequence:
AACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAGGGAATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAA
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-375-3p(1), mmu-miR-127-5p(1), mmu-miR-411-3p(1), mmu-miR-680(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTATCTTCAGCAGGGAATGACTGTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP14_399_ORF_1
1.0311
0.078028601
0.937714853
795
ORF sequence:
ATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAACCGCTATGGAATTGCCATGTGGATTGACAAACCTTGGTAACACTTGTTACATGAATGCTACAGTTCAGTGTATTCGTTCTGTGCCTGAACTCAAAGATGCCCTTAAAAGGTATGCAGGTGCGTTGAGAGCTTCAGGAGAAATGGCTTCAGCACAGTATATTACTGCAGCTCTTAGAGATTTGTTTGATTCCATGGATAAAACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAGGGAATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAACCGCTATGGAATTGCCATGTGGATTGACAAACCTTGGTAACACTTGTTACATGAATGCTACAGTTCAGTGTATTCGTTCTGTGCCTGAACTCAAAGATGCCCTTAAAAGGTATGCAGGTGCGTTGAGAGCTTCAGGAGAAATGGCTTCAGCACAGTATATTACTGCAGCTCTTAGAGATTTGTTTGATTCCATGGATAAAACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAG
Peptide sequence:
MTVLMMGSADALPEEPSAKTVFVEDMTEEQLATAMELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQGMTVLMMGSADALPEEPSAKTVFVEDMTEEQLATAMELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQ
IRESfinder result
IRESfinder score
0.527890809
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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