Plant Circular RNA Database

Detail information of Os10g0536450_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0536450_circ_g.1
					
						ID in PlantcircBase
						osa_circ_007827
					
						Alias
						Os10circ08830/Os_ciR674
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 20890580-20890904  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
					
						Parent gene
						
							Os10g0536450						
					
						Parent gene annotation
						
							Hypothetical protein. (Os10t0536450-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0536400_circ_g.2 Os10g0536400_circ_g.3 Os10g0536400_circ_g.4 Os10g0536400_circ_g.5 Os10g0536450_circ_g.2 Os10g0536450_circ_g.3 Os10g0536450_circ_g.4 						
					
						Support reads
						6/41/24/33
					
						Tissues
						leaf/root/root/shoot, root
					
						Exon boundary  
						
							Yes-No							"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
						Os10t0536400-01:1
Os10t0536450-00:1
Os10t0536400-01:1

General Information
CircRNA Name	Os10g0536450_circ_g.1
ID in PlantcircBase	osa_circ_007827
Alias	Os10circ08830/Os_ciR674
Organism	Oryza sativa
Position	chr10: 20890580-20890904 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
Parent gene	Os10g0536450
Parent gene annotation	Hypothetical protein. (Os10t0536450-00)
Parent gene strand	-
Alternative splicing	Os10g0536400_circ_g.2 Os10g0536400_circ_g.3 Os10g0536400_circ_g.4 Os10g0536400_circ_g.5 Os10g0536450_circ_g.2 Os10g0536450_circ_g.3 Os10g0536450_circ_g.4
Support reads	6/41/24/33
Tissues	leaf/root/root/shoot, root
Exon boundary	Yes-No "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	Os10t0536400-01:1 Os10t0536450-00:1 Os10t0536400-01:1

			
						 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   
						
							Yes							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   
						
							F: GGACTGGAGGGAGGATACAT
 R: CAGTCCAAGGCTCTCCGATA
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	Yes 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	F: GGACTGGAGGGAGGATACAT R: CAGTCCAAGGCTCTCCGATA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCC
GGTGCTCTCGTCATCAACATTGGCGACCAACTTCAGggagatcatcggcacgtactgcacagag
gtaagagagctagggttcaggctatacgaggcgatatcggagagccttggactggagggaggat
acatgagg

									
								

					

						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: 160
Transcript exons: 20890580-20890649,20890815-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTG
CTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 171
Transcript exons: 20890580-20890647,20890802-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCC
GCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 204
Transcript exons: 20890580-20890731,20890853-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCCACAGTCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGC
GACCAACTTCAG
Transcript length: 237
Transcript exons: 20890580-20890690,20890779-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGAACGCCCTCACCATCCT
CCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAAC
CCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 248
Transcript exons: 20890580-20890662,20890740-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGCC
CTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGA
TTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 284
Transcript exons: 20890580-20890676,20890718-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGCTACTACCCACAGTGCCCGGAGCCGGAGCTC
ACCTATGGCCTCCCCGCGCACACCGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGG
TCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCT
CGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 287
Transcript exons: 20890580-20890724,20890763-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCGCGCACACCGACCCCAACGCCCTCACCATCCTCCTCATGGACGACC
AGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGC
TCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 300
Transcript exons: 20890580-20890809,20890835-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC
CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCCGACGGCAAGTGGATTGCCGTCAACC
CGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 302
Transcript exons: 20890580-20890669,20890693-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGAGCAGGAGCAGCACATGGCGGTGAACTACTACCCACAG
TGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGCCCTCACCATCC
TCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAA
CCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 313
Transcript exons: 20890580-20890669,20890682-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGGACGTTGGGGGAGCAGGAGCAGCACATGGCGGTGAACT
ACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGC
CCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGG
ATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 316
Transcript exons: 20890580-20890736,20890746-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCCACAGTGCCCGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAA
CGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAG
TGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG
Transcript length: 325
Transcript exons: 20890580-20890904
GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC
CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAAC
GACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAAC
TTCAG
						
					

						Genomic sequence
						
							GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA
TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA
TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC
CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAAC
GACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAAC
TTCAG
						
					

			
		

Sequences
Splice junction sequence	CGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCC GGTGCTCTCGTCATCAACATTGGCGACCAACTTCAGggagatcatcggcacgtactgcacagag gtaagagagctagggttcaggctatacgaggcgatatcggagagccttggactggagggaggat acatgagg
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: 160 Transcript exons: 20890580-20890649,20890815-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTG CTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 171 Transcript exons: 20890580-20890647,20890802-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCC GCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 204 Transcript exons: 20890580-20890731,20890853-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCCACAGTCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGC GACCAACTTCAG Transcript length: 237 Transcript exons: 20890580-20890690,20890779-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGAACGCCCTCACCATCCT CCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAAC CCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 248 Transcript exons: 20890580-20890662,20890740-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGCC CTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGA TTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 284 Transcript exons: 20890580-20890676,20890718-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGCTACTACCCACAGTGCCCGGAGCCGGAGCTC ACCTATGGCCTCCCCGCGCACACCGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGG TCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCT CGTCATCAACATTGGCGACCAACTTCAG Transcript length: 287 Transcript exons: 20890580-20890724,20890763-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCGCGCACACCGACCCCAACGCCCTCACCATCCTCCTCATGGACGACC AGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGC TCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 300 Transcript exons: 20890580-20890809,20890835-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCCGACGGCAAGTGGATTGCCGTCAACC CGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 302 Transcript exons: 20890580-20890669,20890693-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGAGCAGGAGCAGCACATGGCGGTGAACTACTACCCACAG TGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGCCCTCACCATCC TCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGGATTGCCGTCAA CCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 313 Transcript exons: 20890580-20890669,20890682-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGGACGTTGGGGGAGCAGGAGCAGCACATGGCGGTGAACT ACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAACGC CCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAGTGG ATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 316 Transcript exons: 20890580-20890736,20890746-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCCACAGTGCCCGCTCACCTATGGCCTCCCCGCGCACACCGACCCCAA CGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAACGACGGCAAG TGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAACTTCAG Transcript length: 325 Transcript exons: 20890580-20890904 GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAAC GACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAAC TTCAG
Genomic sequence	GGAGATCATCGGCACGTACTGCACAGAGGTAAGAGAGCTAGGGTTCAGGCTATACGAGGCGATA TCGGAGAGCCTTGGACTGGAGGGAGGATACATGAGGGAGACGTTGGGGGAGCAGGAGCAGCACA TGGCGGTGAACTACTACCCACAGTGCCCGGAGCCGGAGCTCACCTATGGCCTCCCCGCGCACAC CGACCCCAACGCCCTCACCATCCTCCTCATGGACGACCAGGTCGCCGGCCTGCAGGTCCTCAAC GACGGCAAGTGGATTGCCGTCAACCCGCAACCCGGTGCTCTCGTCATCAACATTGGCGACCAAC TTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002924* osi_circ_008650 						
					
						PMCS
						0.577567615

Conservation Information
Conserved circRNAs	osi_circ_002924* osi_circ_008650
PMCS	0.577567615

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os10g0536450_circ_g.1

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