Plant Circular RNA Database

Detail information of Os08g0122800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os08g0122800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_035680
					
						Alias
						Os08circ01057/Os_ciR1041, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 1241556-1242857  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI, SMALT, Segemehl, circRNA_finder, find_circ, CIRI-long
					
						Parent gene
						
							Os08g0122800						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os08t0122800-01);Kringle, conse
rved site domain containing protein. (Os08t0122800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0122800_circ_g.1 Os08g0122800_circ_g.3 Os08g0122800_circ_g.4 Os08g0122800_circ_g.5 Os08g0122800_circ_g.6 						
					
						Support reads
						3/16/3
					
						Tissues
						leaf/root/seed, root
					
						Exon boundary  
						
							No-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
						Os08t0122800-01:4
Os08t0122800-02:3

General Information
CircRNA Name	Os08g0122800_circ_g.2
ID in PlantcircBase	osa_circ_035680
Alias	Os08circ01057/Os_ciR1041,
Organism	Oryza sativa
Position	chr8: 1241556-1242857 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRI, SMALT, Segemehl, circRNA_finder, find_circ, CIRI-long
Parent gene	Os08g0122800
Parent gene annotation	Conserved hypothetical protein. (Os08t0122800-01);Kringle, conse rved site domain containing protein. (Os08t0122800-02)
Parent gene strand	+
Alternative splicing	Os08g0122800_circ_g.1 Os08g0122800_circ_g.3 Os08g0122800_circ_g.4 Os08g0122800_circ_g.5 Os08g0122800_circ_g.6
Support reads	3/16/3
Tissues	leaf/root/seed, root
Exon boundary	No-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	Os08t0122800-01:4 Os08t0122800-02:3

			
						 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  
						
							GTATTTTCTACTGGATCAATTTGAGGCAAACGAATAAATGAGCTTCCTATTGTCTCCAGTGTGA
TGGTGCCGTACTTGTTCATCAGAGAAAACTAACAAGgactgcttataatctggcacttcacgaa
catgggccaaagctctatgacaaactgacagaagacatggaagatcacctgcaagaaatgtgcg
tatcgatt

									
								

					

						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: 370
Transcript exons: 1241556-1241690,1241782-1241886,1242244-1242332,1242817-
1242857
GACTGCTTATAATCTGGCACTTCACGAACATGGGCCAAAGCTCTATGACAAACTGACAGAAGAC
ATGGAAGATCACCTGCAAGAAATGTGCGTATCGATTGAGGCTGCTCAAGGTGGTTTAAAAATTA
TAGATAGGTTCAGTCAAGAGAGTACCTTGCCCTATTATTTGCTTCCGTTTGTATGGGAGAACAT
CTTAGCTTGCGCTTTAATTGTTGCAGCAGAGTGAAGTTATAATTTCAGGCTTCGTTCCAAACAG
CTAGCGTGTATACCACAGCACTCTATGGTTGGTGGCAGCAAAAGATGGAAGGAAAAAACGTATT
AGCGGATGGTGTGATGGTGCCGTACTTGTTCATCAGAGAAAACTAACAAG
						
					

						Genomic sequence
						
							GACTGCTTATAATCTGGCACTTCACGAACATGGGCCAAAGCTCTATGACAAACTGACAGAAGAC
ATGGAAGATCACCTGCAAGAAATGTGCGTATCGATTGAGGCTGCTCAAGGTGGTTTAAAAATTA
TAGATAGGTAAAACAGAATGACTACAGGTGTTGGTTTTGCCTCCAAAATAAAATAAAGCTACTT
CACTTTGCTGACATTGAATATTTGTTTTTGGTAGGTTCAGTCAAGAGAGTACCTTGCCCTATTA
TTTGCTTCCGTTTGTATGGGAGAACATCTTAGCTTGCGCTTTAATTGTTGCAGCAGAGTGAAGT
TATAATTTCAGGTCTCTATTAATTGATGCCTTAGTCAGAAATCTGTTACTGCAGTGCTCTTTCT
GGAAGTGCAAAAATAATATGATTAATAGCATAATGTAAGCTGGCTAGATTTTATGGTTGGGTGA
TATGGGAAGAGTCAATTGCGTTTTCTGTCCAGCTCGGTTTCTATCGGTGAATGGTTGTTCGTTT
TTTTCCTGTGCTTTTCTATTGTTGGAGGATGGCAGGGTTCAAGGTTTTGTTTAGTGCGTTGTAT
CATTTTTATATTCATTTTTTAATGGTTATGTGGCGATGTTTGGGATAGGGTAATTTATGGTTTA
TCTGGTTTTTAAAGACTAAAAAGGTATTTCTCGGTTTGATTGCAACAGGCTTCGTTCCAAACAG
CTAGCGTGTATACCACAGCACTCTATGGTTGGTGGCAGCAAAAGATGGAAGGAAAAAACGTATT
AGCGGATGGGTGAGTGGACCTACCTAGATCAGTCGCATAGGCCAGGATTATAATTATATTTAGA
TGGTCTGATTAACTTTATGGTCGGTCAATCTATTTAACTGGATACATGTTGAGGCCATGGTTAA
AAAAAAACTGTTTGGTGTGGTTCCTCATAGTCTTTGTGTTTGATGCTTATCTAAGATGAGCAAA
CCATGTTTATTATGTTACCTTTTCAGTTATGATTTTGGCGTTACCTTTTCGTTATGTATTCTGG
TCCTCATTTCTGGCTGGTTGGAAACTGTATGTGATGTGATATAGATTTTGATATTGCGTTTGTA
TATTGCTCTACCTAAAAGTTTGTAGTTGGGCCTTGGGGATTATGTGTATCACAAATATTACTTT
GGTATTGTTATTCTGGTTATGATTAAGTTTGTAAAATGATGCTTCTTATCGTATTTTCTACTGG
ATCAATTTGAGGCAAACGAATAAATGAGCTTCCTATTGTCTCCAGTGTGATGGTGCCGTACTTG
TTCATCAGAGAAAACTAACAAG
						
					

			
		

Sequences
Splice junction sequence	GTATTTTCTACTGGATCAATTTGAGGCAAACGAATAAATGAGCTTCCTATTGTCTCCAGTGTGA TGGTGCCGTACTTGTTCATCAGAGAAAACTAACAAGgactgcttataatctggcacttcacgaa catgggccaaagctctatgacaaactgacagaagacatggaagatcacctgcaagaaatgtgcg tatcgatt
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: 370 Transcript exons: 1241556-1241690,1241782-1241886,1242244-1242332,1242817- 1242857 GACTGCTTATAATCTGGCACTTCACGAACATGGGCCAAAGCTCTATGACAAACTGACAGAAGAC ATGGAAGATCACCTGCAAGAAATGTGCGTATCGATTGAGGCTGCTCAAGGTGGTTTAAAAATTA TAGATAGGTTCAGTCAAGAGAGTACCTTGCCCTATTATTTGCTTCCGTTTGTATGGGAGAACAT CTTAGCTTGCGCTTTAATTGTTGCAGCAGAGTGAAGTTATAATTTCAGGCTTCGTTCCAAACAG CTAGCGTGTATACCACAGCACTCTATGGTTGGTGGCAGCAAAAGATGGAAGGAAAAAACGTATT AGCGGATGGTGTGATGGTGCCGTACTTGTTCATCAGAGAAAACTAACAAG
Genomic sequence	GACTGCTTATAATCTGGCACTTCACGAACATGGGCCAAAGCTCTATGACAAACTGACAGAAGAC ATGGAAGATCACCTGCAAGAAATGTGCGTATCGATTGAGGCTGCTCAAGGTGGTTTAAAAATTA TAGATAGGTAAAACAGAATGACTACAGGTGTTGGTTTTGCCTCCAAAATAAAATAAAGCTACTT CACTTTGCTGACATTGAATATTTGTTTTTGGTAGGTTCAGTCAAGAGAGTACCTTGCCCTATTA TTTGCTTCCGTTTGTATGGGAGAACATCTTAGCTTGCGCTTTAATTGTTGCAGCAGAGTGAAGT TATAATTTCAGGTCTCTATTAATTGATGCCTTAGTCAGAAATCTGTTACTGCAGTGCTCTTTCT GGAAGTGCAAAAATAATATGATTAATAGCATAATGTAAGCTGGCTAGATTTTATGGTTGGGTGA TATGGGAAGAGTCAATTGCGTTTTCTGTCCAGCTCGGTTTCTATCGGTGAATGGTTGTTCGTTT TTTTCCTGTGCTTTTCTATTGTTGGAGGATGGCAGGGTTCAAGGTTTTGTTTAGTGCGTTGTAT CATTTTTATATTCATTTTTTAATGGTTATGTGGCGATGTTTGGGATAGGGTAATTTATGGTTTA TCTGGTTTTTAAAGACTAAAAAGGTATTTCTCGGTTTGATTGCAACAGGCTTCGTTCCAAACAG CTAGCGTGTATACCACAGCACTCTATGGTTGGTGGCAGCAAAAGATGGAAGGAAAAAACGTATT AGCGGATGGGTGAGTGGACCTACCTAGATCAGTCGCATAGGCCAGGATTATAATTATATTTAGA TGGTCTGATTAACTTTATGGTCGGTCAATCTATTTAACTGGATACATGTTGAGGCCATGGTTAA AAAAAAACTGTTTGGTGTGGTTCCTCATAGTCTTTGTGTTTGATGCTTATCTAAGATGAGCAAA CCATGTTTATTATGTTACCTTTTCAGTTATGATTTTGGCGTTACCTTTTCGTTATGTATTCTGG TCCTCATTTCTGGCTGGTTGGAAACTGTATGTGATGTGATATAGATTTTGATATTGCGTTTGTA TATTGCTCTACCTAAAAGTTTGTAGTTGGGCCTTGGGGATTATGTGTATCACAAATATTACTTT GGTATTGTTATTCTGGTTATGATTAAGTTTGTAAAATGATGCTTCTTATCGTATTTTCTACTGG ATCAATTTGAGGCAAACGAATAAATGAGCTTCCTATTGTCTCCAGTGTGATGGTGCCGTACTTG TTCATCAGAGAAAACTAACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225099859

Conservation Information
Conserved circRNAs	NA
PMCS	0.225099859

			
						 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;Chu et al., 2017; this study

circRNA

Detail information of Os08g0122800_circ_g.2

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