Plant Circular RNA Database

Detail information of Os12g0264500_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os12g0264500_circ_g.8
					
						ID in PlantcircBase
						osa_circ_011059
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 9353886-9354197  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os12g0264500						
					
						Parent gene annotation
						
							Similar to CoA-thioester hydrolase CHY1 (3-hydroxyisobutyryl-coe
nzyme A hydrolase). (Os12t0264500-01);Similar to CHY1. (Os12t026
4500-02);Conserved hypothetical protein. (Os12t0264500-03);Simil
ar to cDNA clone:J013000A22, full insert sequence. (Os12t0264500
-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0264500_circ_igg.1 Os12g0264500_circ_igg.2 Os12g0264500_circ_g.1 Os12g0264500_circ_g.2 Os12g0264500_circ_g.3 Os12g0264500_circ_g.4 Os12g0264500_circ_g.5 Os12g0264500_circ_g.6 Os12g0264500_circ_g.7 Os12g0264500_circ_g.9 Os12g0264500_circ_g.10 Os12g0264500_circ_g.11 Os12g0264500_circ_g.12 Os12g0264500_circ_g.13 Os12g0264500_circ_g.14 Os12g0264500_circ_g.15 Os12g0264500_circ_g.16 Os12g0264500_circ_g.17 Os12g0264500_circ_g.18 Os12g0264500_circ_g.19 Os12g0264500_circ_g.20 Os12g0264500_circ_g.21 Os12g0264500_circ_g.22 Os12g0264500_circ_g.23 Os12g0264500_circ_g.24 Os12g0264500_circ_g.25 Os12g0264500_circ_g.26 Os12g0264500_circ_g.27 						
					
						Support reads
						28
					
						Tissues
						shoot, root, seed
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os12t0264500-02:2
Os12t0264500-01:2

General Information
CircRNA Name	Os12g0264500_circ_g.8
ID in PlantcircBase	osa_circ_011059
Alias	NA
Organism	Oryza sativa
Position	chr12: 9353886-9354197 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os12g0264500
Parent gene annotation	Similar to CoA-thioester hydrolase CHY1 (3-hydroxyisobutyryl-coe nzyme A hydrolase). (Os12t0264500-01);Similar to CHY1. (Os12t026 4500-02);Conserved hypothetical protein. (Os12t0264500-03);Simil ar to cDNA clone:J013000A22, full insert sequence. (Os12t0264500 -04)
Parent gene strand	+
Alternative splicing	Os12g0264500_circ_igg.1 Os12g0264500_circ_igg.2 Os12g0264500_circ_g.1 Os12g0264500_circ_g.2 Os12g0264500_circ_g.3 Os12g0264500_circ_g.4 Os12g0264500_circ_g.5 Os12g0264500_circ_g.6 Os12g0264500_circ_g.7 Os12g0264500_circ_g.9 Os12g0264500_circ_g.10 Os12g0264500_circ_g.11 Os12g0264500_circ_g.12 Os12g0264500_circ_g.13 Os12g0264500_circ_g.14 Os12g0264500_circ_g.15 Os12g0264500_circ_g.16 Os12g0264500_circ_g.17 Os12g0264500_circ_g.18 Os12g0264500_circ_g.19 Os12g0264500_circ_g.20 Os12g0264500_circ_g.21 Os12g0264500_circ_g.22 Os12g0264500_circ_g.23 Os12g0264500_circ_g.24 Os12g0264500_circ_g.25 Os12g0264500_circ_g.26 Os12g0264500_circ_g.27
Support reads	28
Tissues	shoot, root, seed
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os12t0264500-02:2 Os12t0264500-01:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
						 Sequences
					
						Splice junction sequence  
						
							TCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTGGGAATAAGAAGCAGATAGAA
GCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAGgtgtcttgcagagcaacgagtcctccgc
gaaggtcgatgagccggtagctacagagaacagtgacgctgctcctgctgaggcatctgtagat
gctgtgaa

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

						Full-length trsnacripts
						
							Transcript length: 239
Transcript exons: 9353886-9354007,9354081-9354197
GTGTCTTGCAGAGCAACGAGTCCTCCGCGAAGGTCGATGAGCCGGTAGCTACAGAGAACAGTGA
CGCTGCTCCTGCTGAGGCATCTGTAGATGCTGTGAACGGCAAGATTCCTCCTACCAAGTTGATT
CCCCAACATCCTCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTGGGAATAAGA
AGCAGATAGAAGCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAG
						
						Genomic sequence
						
							GTGTCTTGCAGAGCAACGAGTCCTCCGCGAAGGTCGATGAGCCGGTAGCTACAGAGAACAGTGA
CGCTGCTCCTGCTGAGGCATCTGTAGATGCTGTGAACGGCAAGATTCCTCCTACCAAGGTTACT
TCTTATGCTGTAATGGCCGATGCTTACATCAACTTAGGCTTGATCGTGGTCATAAATGTTCATG
TAGTTGATTCCCCAACATCCTCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTG
GGAATAAGAAGCAGATAGAAGCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAG

Sequences
Splice junction sequence	TCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTGGGAATAAGAAGCAGATAGAA GCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAGgtgtcttgcagagcaacgagtcctccgc gaaggtcgatgagccggtagctacagagaacagtgacgctgctcctgctgaggcatctgtagat gctgtgaa
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 239 Transcript exons: 9353886-9354007,9354081-9354197 GTGTCTTGCAGAGCAACGAGTCCTCCGCGAAGGTCGATGAGCCGGTAGCTACAGAGAACAGTGA CGCTGCTCCTGCTGAGGCATCTGTAGATGCTGTGAACGGCAAGATTCCTCCTACCAAGTTGATT CCCCAACATCCTCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTGGGAATAAGA AGCAGATAGAAGCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAG
Genomic sequence	GTGTCTTGCAGAGCAACGAGTCCTCCGCGAAGGTCGATGAGCCGGTAGCTACAGAGAACAGTGA CGCTGCTCCTGCTGAGGCATCTGTAGATGCTGTGAACGGCAAGATTCCTCCTACCAAGGTTACT TCTTATGCTGTAATGGCCGATGCTTACATCAACTTAGGCTTGATCGTGGTCATAAATGTTCATG TAGTTGATTCCCCAACATCCTCTGGAAGGTGTTACATTGACAGAAAGAACTGTACGTATTACTG GGAATAAGAAGCAGATAGAAGCGGCAAAAGATATTATTAAGCAAGCTATGAGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.625001874

Conservation Information
Conserved circRNAs	NA
PMCS	0.625001874

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9354097-9354196(-)
						
						Potential amino acid sequence
						
							MLGNQLGRRNLAVHSIYRCLSRSSVTVLCSYRLIDLRGGLVALQDT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9354097-9354196(-)
Potential amino acid sequence	MLGNQLGRRNLAVHSIYRCLSRSSVTVLCSYRLIDLRGGLVALQDT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0264500_circ_g.8

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