Plant Circular RNA Database

Detail information of Os06g0496800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0496800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_030951
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 17379869-17380383  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0496800						
					
						Parent gene annotation
						
							Similar to S-locus receptor kinase precursor. (Os06t0496800-01);
Similar to S-locus receptor kinase precursor. (Os06t0496800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						Tissues
						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
						Os06t0496800-02:2
Os06t0496800-01:2

General Information
CircRNA Name	Os06g0496800_circ_g.3
ID in PlantcircBase	osa_circ_030951
Alias	NA
Organism	Oryza sativa
Position	chr6: 17379869-17380383 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0496800
Parent gene annotation	Similar to S-locus receptor kinase precursor. (Os06t0496800-01); Similar to S-locus receptor kinase precursor. (Os06t0496800-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	4
Tissues	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	Os06t0496800-02:2 Os06t0496800-01:2

			
						 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  
						
							TGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGATCCTCAGCGGCCAGCGCAACGGCGCGCTC
TACCTCGAGGAGCACCAGCAATCCCTCATCCAAGACacgaggggaagagcgcgcagctggggtg
ggcgacgaggcacaacatcatcgtggggatcgcgaggggattgttgtacctgcacgaggactcg
ttgctgaa

									
								

					

						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: 187
Transcript exons: 17379869-17379917,17380246-17380383
ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCCGGAGTTCGCGCTG
GAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGATCCTCA
GCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAAGAC
Transcript length: 192
Transcript exons: 17379869-17379922,17380246-17380383
ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGCCGGAGTTCG
CGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGAT
CCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAAGAC
Transcript length: 389
Transcript exons: 17379869-17380106,17380233-17380383
ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGGGATCGCGAG
GGGATTGTTGTACCTGCACGAGGACTCGTTGCTGAAGGTGGTGCACCGAGACCTCAAGGCCAGC
AATGTCCTCCTCGACGACAAGATGAGCCCCAAGATCTCCGACTTCGGCATGGCCAAGATCTTCG
AGGACGAGTGTAACGAGGTCAACACCGGCCGCGTGGTCGGCACCTATGGGTACATGGCGCCGGA
GTTCGCGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTA
GAGATCCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCC
AAGAC
						
					

						Genomic sequence
						
							ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGGGATCGCGAG
GGGATTGTTGTACCTGCACGAGGACTCGTTGCTGAAGGTGGTGCACCGAGACCTCAAGGCCAGC
AATGTCCTCCTCGACGACAAGATGAGCCCCAAGATCTCCGACTTCGGCATGGCCAAGATCTTCG
AGGACGAGTGTAACGAGGTCAACACCGGCCGCGTGGTCGGCACCTAGTACGTTCATTCACCTTA
TGCTTTCCCCCACCCAAAGTTCAGTTCATCAAAAAAAAAAAAAACTTTTCCTCTTTTTCCTATC
GATTTGTACTCAAGTTTTAAAATGTCACAAATTTAATCTTGTAGTGGGTACATGGCGCCGGAGT
TCGCGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGA
GATCCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAA
GAC
						
					

			
		

Sequences
Splice junction sequence	TGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGATCCTCAGCGGCCAGCGCAACGGCGCGCTC TACCTCGAGGAGCACCAGCAATCCCTCATCCAAGACacgaggggaagagcgcgcagctggggtg ggcgacgaggcacaacatcatcgtggggatcgcgaggggattgttgtacctgcacgaggactcg ttgctgaa
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: 187 Transcript exons: 17379869-17379917,17380246-17380383 ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCCGGAGTTCGCGCTG GAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGATCCTCA GCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAAGAC Transcript length: 192 Transcript exons: 17379869-17379922,17380246-17380383 ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGCCGGAGTTCG CGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGAGAT CCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAAGAC Transcript length: 389 Transcript exons: 17379869-17380106,17380233-17380383 ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGGGATCGCGAG GGGATTGTTGTACCTGCACGAGGACTCGTTGCTGAAGGTGGTGCACCGAGACCTCAAGGCCAGC AATGTCCTCCTCGACGACAAGATGAGCCCCAAGATCTCCGACTTCGGCATGGCCAAGATCTTCG AGGACGAGTGTAACGAGGTCAACACCGGCCGCGTGGTCGGCACCTATGGGTACATGGCGCCGGA GTTCGCGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTA GAGATCCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCC AAGAC
Genomic sequence	ACGAGGGGAAGAGCGCGCAGCTGGGGTGGGCGACGAGGCACAACATCATCGTGGGGATCGCGAG GGGATTGTTGTACCTGCACGAGGACTCGTTGCTGAAGGTGGTGCACCGAGACCTCAAGGCCAGC AATGTCCTCCTCGACGACAAGATGAGCCCCAAGATCTCCGACTTCGGCATGGCCAAGATCTTCG AGGACGAGTGTAACGAGGTCAACACCGGCCGCGTGGTCGGCACCTAGTACGTTCATTCACCTTA TGCTTTCCCCCACCCAAAGTTCAGTTCATCAAAAAAAAAAAAAACTTTTCCTCTTTTTCCTATC GATTTGTACTCAAGTTTTAAAATGTCACAAATTTAATCTTGTAGTGGGTACATGGCGCCGGAGT TCGCGCTGGAGGGCGTCTACTCGGTGAAGTCTGACGTGTTCAGCTTCGGCGTGCTGCTGCTAGA GATCCTCAGCGGCCAGCGCAACGGCGCGCTCTACCTCGAGGAGCACCAGCAATCCCTCATCCAA GAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006765* osi_circ_016241 						
					
						PMCS
						0.562490531

Conservation Information
Conserved circRNAs	osi_circ_006765* osi_circ_016241
PMCS	0.562490531

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17380019-17379964(+)
17380048-17380375(-)
						
						Potential amino acid sequence
						
							MSPKISDFGMAKIFEDECNEVNTGRVVGTYGYMAPEFALEGVYSVKSDVFSFGVLLLEILSGQR
NGALYLEEHQQSLIQDTRGRARSWGGRRGTTSSWGSRGDCCTCTRTRC*(+)
MPKSEILGLILSSRRTLLALRSRCTTFSNESSCRYNNPLAIPTMMLCLVAHPSCALFPSCLG*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17380019-17379964(+) 17380048-17380375(-)
Potential amino acid sequence	MSPKISDFGMAKIFEDECNEVNTGRVVGTYGYMAPEFALEGVYSVKSDVFSFGVLLLEILSGQR NGALYLEEHQQSLIQDTRGRARSWGGRRGTTSSWGSRGDCCTCTRTRC(+) MPKSEILGLILSSRRTLLALRSRCTTFSNESSCRYNNPLAIPTMMLCLVAHPSCALFPSCLG( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0496800_circ_g.3

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