Plant Circular RNA Database

Detail information of Os02g0628200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0628200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015666
					
						Alias
						Os_ciR2268
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 25121236-25121687  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0628200						
					
						Parent gene annotation
						
							Protein of unknown function DUF250 domain containing protein. (O
s02t0628200-01);Similar to Integral membrane protein like. (Os02
t0628200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						5/7
					
						Tissues
						root/shoot, root
					
						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
						Os02t0628200-01:2
Os02t0628200-02:2

General Information
CircRNA Name	Os02g0628200_circ_g.1
ID in PlantcircBase	osa_circ_015666
Alias	Os_ciR2268
Organism	Oryza sativa
Position	chr2: 25121236-25121687 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0628200
Parent gene annotation	Protein of unknown function DUF250 domain containing protein. (O s02t0628200-01);Similar to Integral membrane protein like. (Os02 t0628200-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	5/7
Tissues	root/shoot, root
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	Os02t0628200-01:2 Os02t0628200-02:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CGACGCAGCTTCTGTATCAAT
 R: AATGCCAACTCCAAGTAGCAG
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	Yes 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	F: CGACGCAGCTTCTGTATCAAT R: AATGCCAACTCCAAGTAGCAG 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  
						
							GCCTTACCAAGCGGCGATCCTGTTCGCAACCGGCCCCTTCGTGGATCAGCTCCTCACCAGCCGC
AGTGTCTTCGCCCACAAATACACGGCTCCAGTCGTGtgagagtatcaagttttctctgctgatc
ctgctacttggagttggcattgcttctgtcactgacctcaagttaaatcttcttgggtctgtcc
tttctggc

						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: 295
Transcript exons: 25121236-25121368,25121526-25121687
TGAGAGTATCAAGTTTTCTCTGCTGATCCTGCTACTTGGAGTTGGCATTGCTTCTGTCACTGAC
CTCAAGTTAAATCTTCTTGGGTCTGTCCTTTCTGGCCTCGCCATCGCCACAACTTGTGTTGGCC
AAATTCTCACCAACACAATACAGAAGAGGTTAAAGGTCTCTTCGACGCAGCTTCTGTATCAATC
CGCGCCTTACCAAGCGGCGATCCTGTTCGCAACCGGCCCCTTCGTGGATCAGCTCCTCACCAGC
CGCAGTGTCTTCGCCCACAAATACACGGCTCCAGTCGTG
						
						Genomic sequence
						
							TGAGAGTATCAAGTTTTCTCTGCTGATCCTGCTACTTGGAGTTGGCATTGCTTCTGTCACTGAC
CTCAAGTTAAATCTTCTTGGGTCTGTCCTTTCTGGCCTCGCCATCGCCACAACTTGTGTTGGCC
AAATTGTATCCTACAGTTTAAATACAACTGTTAATCATTCAGATTCCATAAGTTGCATCTTTTC
TGCTTTACCCATTCATGCTCCATACCGTGCTATTTTAGCTGCCAAACGAATTCTATTGTTGCCA
GCGTTTATCCTTAACCCGTTAAACTTGAACGAAGCTCACCAACACAATACAGAAGAGGTTAAAG
GTCTCTTCGACGCAGCTTCTGTATCAATCCGCGCCTTACCAAGCGGCGATCCTGTTCGCAACCG
GCCCCTTCGTGGATCAGCTCCTCACCAGCCGCAGTGTCTTCGCCCACAAATACACGGCTCCAGT
CGTG

Sequences
Splice junction sequence	GCCTTACCAAGCGGCGATCCTGTTCGCAACCGGCCCCTTCGTGGATCAGCTCCTCACCAGCCGC AGTGTCTTCGCCCACAAATACACGGCTCCAGTCGTGtgagagtatcaagttttctctgctgatc ctgctacttggagttggcattgcttctgtcactgacctcaagttaaatcttcttgggtctgtcc tttctggc
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: 295 Transcript exons: 25121236-25121368,25121526-25121687 TGAGAGTATCAAGTTTTCTCTGCTGATCCTGCTACTTGGAGTTGGCATTGCTTCTGTCACTGAC CTCAAGTTAAATCTTCTTGGGTCTGTCCTTTCTGGCCTCGCCATCGCCACAACTTGTGTTGGCC AAATTCTCACCAACACAATACAGAAGAGGTTAAAGGTCTCTTCGACGCAGCTTCTGTATCAATC CGCGCCTTACCAAGCGGCGATCCTGTTCGCAACCGGCCCCTTCGTGGATCAGCTCCTCACCAGC CGCAGTGTCTTCGCCCACAAATACACGGCTCCAGTCGTG
Genomic sequence	TGAGAGTATCAAGTTTTCTCTGCTGATCCTGCTACTTGGAGTTGGCATTGCTTCTGTCACTGAC CTCAAGTTAAATCTTCTTGGGTCTGTCCTTTCTGGCCTCGCCATCGCCACAACTTGTGTTGGCC AAATTGTATCCTACAGTTTAAATACAACTGTTAATCATTCAGATTCCATAAGTTGCATCTTTTC TGCTTTACCCATTCATGCTCCATACCGTGCTATTTTAGCTGCCAAACGAATTCTATTGTTGCCA GCGTTTATCCTTAACCCGTTAAACTTGAACGAAGCTCACCAACACAATACAGAAGAGGTTAAAG GTCTCTTCGACGCAGCTTCTGTATCAATCCGCGCCTTACCAAGCGGCGATCCTGTTCGCAACCG GCCCCTTCGTGGATCAGCTCCTCACCAGCCGCAGTGTCTTCGCCCACAAATACACGGCTCCAGT CGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.538954074

Conservation Information
Conserved circRNAs	NA
PMCS	0.538954074

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25121345-25121552(-)
						
						Potential amino acid sequence
						
							MARPERTDPRRFNLRSVTEAMPTPSSRISRENLILSHDWSRVFVGEDTAAGEELIHEGAGCEQD
RRLVRRGLIQKLRRRDL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25121345-25121552(-)
Potential amino acid sequence	MARPERTDPRRFNLRSVTEAMPTPSSRISRENLILSHDWSRVFVGEDTAAGEELIHEGAGCEQD RRLVRRGLIQKLRRRDL*(-)
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 Os02g0628200_circ_g.1

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