Plant Circular RNA Database

Detail information of Os12g0264500_circ_g.24

			
						 General Information
					
						CircRNA Name
						Os12g0264500_circ_g.24
					
						ID in PlantcircBase
						osa_circ_011074
					
						Alias
						Os_ciR3732
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 9360641-9361028  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						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.8 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.25 Os12g0264500_circ_g.26 Os12g0264500_circ_g.27 						
					
						Support reads
						2/30
					
						Tissues
						root/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
Os12t0264500-03:2

General Information
CircRNA Name	Os12g0264500_circ_g.24
ID in PlantcircBase	osa_circ_011074
Alias	Os_ciR3732
Organism	Oryza sativa
Position	chr12: 9360641-9361028 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
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.8 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.25 Os12g0264500_circ_g.26 Os12g0264500_circ_g.27
Support reads	2/30
Tissues	root/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 Os12t0264500-03:2

			
						 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  
						
							CACTTAAAAAGGTTGATACATCTGATCCATTTGCTATATGTGGAATTATCGATCAATATTCGCA
ACAACCATCTCTGAAAGAAAAAAGCGCTCTGAATAGgagagtatgttggtcttactggtgtaag
gttggatgctgctgaaatgcttgcttgtggcctagcaactcattttgtaccttcagatgtaggt
ctgccagt

						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: 208
Transcript exons: 9360641-9360726,9360907-9361028
GAGAGTATGTTGGTCTTACTGGTGTAAGGTTGGATGCTGCTGAAATGCTTGCTTGTGGCCTAGC
AACTCATTTTGTACCTTCAGATAGGCTGTCTTTGCTAGAAGAATCACTTAAAAAGGTTGATACA
TCTGATCCATTTGCTATATGTGGAATTATCGATCAATATTCGCAACAACCATCTCTGAAAGAAA
AAAGCGCTCTGAATAG
						
						Genomic sequence
						
							GAGAGTATGTTGGTCTTACTGGTGTAAGGTTGGATGCTGCTGAAATGCTTGCTTGTGGCCTAGC
AACTCATTTTGTACCTTCAGATGTAGGTCTGCCAGTGGCTTTTGAATTTTATGTTCAGTGTGGG
ACCACATATTTGTTCGTTTTATGTTTGGAAGTCAACTGTTATAACATGTCCTACACACTTGACT
TGTTCCAAGTGTGATTATAGATAACCCGAGTATTGCTGGTTTTCTAATTCCTACTAGTACACTC
ACTCTTGCAGAGGCTGTCTTTGCTAGAAGAATCACTTAAAAAGGTTGATACATCTGATCCATTT
GCTATATGTGGAATTATCGATCAATATTCGCAACAACCATCTCTGAAAGAAAAAAGCGCTCTGA
ATAG

Sequences
Splice junction sequence	CACTTAAAAAGGTTGATACATCTGATCCATTTGCTATATGTGGAATTATCGATCAATATTCGCA ACAACCATCTCTGAAAGAAAAAAGCGCTCTGAATAGgagagtatgttggtcttactggtgtaag gttggatgctgctgaaatgcttgcttgtggcctagcaactcattttgtaccttcagatgtaggt ctgccagt
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: 208 Transcript exons: 9360641-9360726,9360907-9361028 GAGAGTATGTTGGTCTTACTGGTGTAAGGTTGGATGCTGCTGAAATGCTTGCTTGTGGCCTAGC AACTCATTTTGTACCTTCAGATAGGCTGTCTTTGCTAGAAGAATCACTTAAAAAGGTTGATACA TCTGATCCATTTGCTATATGTGGAATTATCGATCAATATTCGCAACAACCATCTCTGAAAGAAA AAAGCGCTCTGAATAG
Genomic sequence	GAGAGTATGTTGGTCTTACTGGTGTAAGGTTGGATGCTGCTGAAATGCTTGCTTGTGGCCTAGC AACTCATTTTGTACCTTCAGATGTAGGTCTGCCAGTGGCTTTTGAATTTTATGTTCAGTGTGGG ACCACATATTTGTTCGTTTTATGTTTGGAAGTCAACTGTTATAACATGTCCTACACACTTGACT TGTTCCAAGTGTGATTATAGATAACCCGAGTATTGCTGGTTTTCTAATTCCTACTAGTACACTC ACTCTTGCAGAGGCTGTCTTTGCTAGAAGAATCACTTAAAAAGGTTGATACATCTGATCCATTT GCTATATGTGGAATTATCGATCAATATTCGCAACAACCATCTCTGAAAGAAAAAAGCGCTCTGA ATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016043 						
					
						PMCS
						0.45369564

Conservation Information
Conserved circRNAs	osi_circ_016043
PMCS	0.45369564

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9360686-9360680(+)
						
						Potential amino acid sequence
						
							MLACGLATHFVPSDRLSLLEESLKKVDTSDPFAICGIIDQYSQQPSLKEKSALNRRVCWSYWCK
VGCC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9360686-9360680(+)
Potential amino acid sequence	MLACGLATHFVPSDRLSLLEESLKKVDTSDPFAICGIIDQYSQQPSLKEKSALNRRVCWSYWCK VGCC*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0264500_circ_g.24

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