Plant Circular RNA Database

Detail information of Os10g0558725_circ_ag.3

			
						 General Information
					
						CircRNA Name
						Os10g0558725_circ_ag.3
					
						ID in PlantcircBase
						osa_circ_007988
					
						Alias
						Os_ciR1208
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 21990238-21992775  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						PcircRNA_finder, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os10g0558700_circ_igg.1 Os10g0558725_circ_igg.1 Os10g0558725_circ_ag.1 Os10g0558725_circ_g.1 Os10g0558725_circ_ag.2 Os10g0558750_circ_igg.1 Os10g0558750_circ_igg.2 Os10g0558750_circ_ag.1 Os10g0558750_circ_ag.2 Os10g0558900_circ_igg.1 Os10g0559300_circ_igg.1 EPlOSAG00000044329_circ_ig.1 						
					
						Support reads
						49/17
					
						Tissues
						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  
						
							CT-AC							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
						NA

General Information
CircRNA Name	Os10g0558725_circ_ag.3
ID in PlantcircBase	osa_circ_007988
Alias	Os_ciR1208
Organism	Oryza sativa
Position	chr10: 21990238-21992775 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	PcircRNA_finder, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os10g0558700_circ_igg.1 Os10g0558725_circ_igg.1 Os10g0558725_circ_ag.1 Os10g0558725_circ_g.1 Os10g0558725_circ_ag.2 Os10g0558750_circ_igg.1 Os10g0558750_circ_igg.2 Os10g0558750_circ_ag.1 Os10g0558750_circ_ag.2 Os10g0558900_circ_igg.1 Os10g0559300_circ_igg.1 EPlOSAG00000044329_circ_ig.1
Support reads	49/17
Tissues	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	CT-AC 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	NA

			
						 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  
						
							GTGTGTACTCCTTCTTGGCGTCCAGTGGCTGGCTGAAGAAATCAACAATGTCTCTCTTGAGGTT
TGCAATCACTTCATCTGGCACTCCATGGTTGATGAGcagaaagaacccccaatactggcaggca
gatctcagcttcacacactcctcttctgatgattgcggacaaagcaatttcttgagatcgatga
tcggaatc

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CAGAAAGAACCCCCAATACTGGCAGGCAGATCTCAGCTTCACACACTCCTCTTCTGATGATTGC
GGACAAAGCAATTTCTTGAGATCGATGATCGGAATCGCCATGTCACCTTGGTAGTTGTTGATGA
CCTCCTCAGAACTAGCCTCTGGTCTGATGTACCTTTCAGGTATGTGTTCATCTGGATCATTGCA
AATTTCTGCAAGCGCCTGCACATTAGGCACTGGGAGAGAACCAACGGATCTTGCTCCCGCCATT
GCAATTCCCAGTTTCTGCACTAAGTGTTTTCTTTTCTTTTCCTTTTTTGGCAAGCAGTTGTTCT
AGGCTGTATACTGCATATAACGTGTAGAATATACCATATTTATAGACCTTCAGAAGAACACTCA
CTTGATTTTATGGTTTACTGTTTAGGTATCCAGGTGTTTACACTAGCTAAATCATGCCTTTTTT
TTTTGAAGTAAAAGGTAGAGAGTCTCTACCTTATGGCATTAGAGGAACACATCTATGTCATTAG
AGGAACACATCTATGTCAAAAGGGATTTTTTTTAAAGATAATGGATAGAAAAACTGGTGGATAT
AGATGGCCAACTGAAAGCAACACATACAGTATCAGAGACGGGGAAGGCAGAGTCTCTTATCCTG
ATATGGCTTCAAGCTCTTCAATTGTAGTACACTATCTTCCATCTTCACGTCAAAAGAGCCCTTG
GAATTTTCTCCATCAAGTGTGACTCGCCTGCCATCAGCGATGACTAACCATGGAAAAAAGCAGG
GTGATGTTCTCAAATTCCAATCACCTTGTCTGTCTGCTTCAACTGATGTGAACAGCTCTACCAT
TCCTCTCTCAAAGAAGAAAAGGTTGAATCATGCTACATAACAATCATTCTCTCTTAATTCTAAA
TAAGAGAACATGACATCCTACGTGCATATTTAGTTGTTGCTGTTTTCAACCTTACCAAATTTTG
ATATTGCCAAAGTTTGGTAAGGCAACAAACTAAACACACTTCAACCATTACTATCTTATTAAAT
TTTGGCAGCTCTAGAAGCTTCTTTTCTTAAAACTCTACTAGAATTTGGTAAAGACATCAAACTA
AACAAAGCCAACGCTACCGAAATGTAGTAATGCCAAAGTGTGCCAAAATTTAGCATGGAAGATG
GTGTACCTAATTTGTTAGTCTGAACTGAAATTCTATTATCGTACAGTTAATTCTTCTAGGCATC
AATGTTTATTTTTTGGATGTTTGCATCATAACCTGAGTACGGGCAGTTCCTGATATATGGGACA
AGACTCAAAATATCAGGTAAATCATCCTCATAACACAGGATTATTGGACACCTCTAGATATAAT
AAGCAGCAAATCTCAAGGACACAGCCTTGAAGCAGCTTCATCTCAGTATTTCACTACACTACTA
CAGGCATCGTGGTCATGGCTGCTATTCCAACTTCAACATCTCCAGTCTGTTCTTTCCATCAAGC
TGTTGTGTGAAGAATTGTGTCATGAAATCAAGGTAACTAATTGATCTGTAATTCACTTTACCAT
CTTTCACAAATTCCGTCAGAGGTCTGATCACCATATTCTCACACGGATAGTGGAACAGTGATGC
TGAAATCCGCTCCTTATTTGGGTTTATCACGGCCCTGTGCTCAACACTTCTGAACTTTCCGTTA
CTTAGGATCTGTACATATCAATAGCACATCACTCACATCAGTACAAAGGTGCAAGAGAGGTAGG
CCATCCAACAACAATTTTCAGAAGCTTTTAGGTACGTTCTTTCTTCTTTGGTGCTTCCACAAGT
TCTTTTTTTTAGATAATGGAAGCTTTTATTGAACTCATCCAGTTACATCAAAGTTCTTTGACAA
GTGAAAGCATAATTAGTTCTTGGTCGGTACCTCAAGTGTGTCGCCAATGTTAACGATGAATGCA
CCATTCGGAGCGTCTACGGATAACCACTTGCCATCTTTCTTGATCTGCAGGCCCTGCACGTCGT
TAACCTGGAGCAGCAGTGTTAGGCCAACCACATCAGAGTGCGGCGAAATGCCCATCACCTTGTC
AGATTGCAGGCACGGTGGGTAGTAGGTCATCCTTAAGCCTCGAGGCTGCTCTTCAAATATGCCT
AAAAGAGCCTCTGGCTTAGCGCCCACAGCCTTAGCCATGAACTCAAACAAGCAGAGTGCCAGGC
TTTTAGTCTCTGATGAGTATGCATCAAGGGATCGCCTATTTCCAGACATCTCCAGTTAAGAAGA
GACAGATGCCTATCAAAAGCTAAATTACACATTTTATTTGGGTAGATCACCTGAAAGATGCAGG
GGAAGTCGGCCAGAACCTCAAGTCCCTTGAATCGCTAGGATGGACTTGAAGATACAGCATGTCT
GCCCAGTCAAGTTTCTGGTCCTCGGAGAAAACGAGGGCCTGTCCATAGCCTTCGAGGCTGTTGG
GTAGCTGTGTGTACTCCTTCTTGGCGTCCAGTGGCTGGCTGAAGAAATCAACAATGTCTCTCTT
GAGGTTTGCAATCACTTCATCTGGCACTCCATGGTTGATGAG
						
					

			
		

Sequences
Splice junction sequence	GTGTGTACTCCTTCTTGGCGTCCAGTGGCTGGCTGAAGAAATCAACAATGTCTCTCTTGAGGTT TGCAATCACTTCATCTGGCACTCCATGGTTGATGAGcagaaagaacccccaatactggcaggca gatctcagcttcacacactcctcttctgatgattgcggacaaagcaatttcttgagatcgatga tcggaatc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CAGAAAGAACCCCCAATACTGGCAGGCAGATCTCAGCTTCACACACTCCTCTTCTGATGATTGC GGACAAAGCAATTTCTTGAGATCGATGATCGGAATCGCCATGTCACCTTGGTAGTTGTTGATGA CCTCCTCAGAACTAGCCTCTGGTCTGATGTACCTTTCAGGTATGTGTTCATCTGGATCATTGCA AATTTCTGCAAGCGCCTGCACATTAGGCACTGGGAGAGAACCAACGGATCTTGCTCCCGCCATT GCAATTCCCAGTTTCTGCACTAAGTGTTTTCTTTTCTTTTCCTTTTTTGGCAAGCAGTTGTTCT AGGCTGTATACTGCATATAACGTGTAGAATATACCATATTTATAGACCTTCAGAAGAACACTCA CTTGATTTTATGGTTTACTGTTTAGGTATCCAGGTGTTTACACTAGCTAAATCATGCCTTTTTT TTTTGAAGTAAAAGGTAGAGAGTCTCTACCTTATGGCATTAGAGGAACACATCTATGTCATTAG AGGAACACATCTATGTCAAAAGGGATTTTTTTTAAAGATAATGGATAGAAAAACTGGTGGATAT AGATGGCCAACTGAAAGCAACACATACAGTATCAGAGACGGGGAAGGCAGAGTCTCTTATCCTG ATATGGCTTCAAGCTCTTCAATTGTAGTACACTATCTTCCATCTTCACGTCAAAAGAGCCCTTG GAATTTTCTCCATCAAGTGTGACTCGCCTGCCATCAGCGATGACTAACCATGGAAAAAAGCAGG GTGATGTTCTCAAATTCCAATCACCTTGTCTGTCTGCTTCAACTGATGTGAACAGCTCTACCAT TCCTCTCTCAAAGAAGAAAAGGTTGAATCATGCTACATAACAATCATTCTCTCTTAATTCTAAA TAAGAGAACATGACATCCTACGTGCATATTTAGTTGTTGCTGTTTTCAACCTTACCAAATTTTG ATATTGCCAAAGTTTGGTAAGGCAACAAACTAAACACACTTCAACCATTACTATCTTATTAAAT TTTGGCAGCTCTAGAAGCTTCTTTTCTTAAAACTCTACTAGAATTTGGTAAAGACATCAAACTA AACAAAGCCAACGCTACCGAAATGTAGTAATGCCAAAGTGTGCCAAAATTTAGCATGGAAGATG GTGTACCTAATTTGTTAGTCTGAACTGAAATTCTATTATCGTACAGTTAATTCTTCTAGGCATC AATGTTTATTTTTTGGATGTTTGCATCATAACCTGAGTACGGGCAGTTCCTGATATATGGGACA AGACTCAAAATATCAGGTAAATCATCCTCATAACACAGGATTATTGGACACCTCTAGATATAAT AAGCAGCAAATCTCAAGGACACAGCCTTGAAGCAGCTTCATCTCAGTATTTCACTACACTACTA CAGGCATCGTGGTCATGGCTGCTATTCCAACTTCAACATCTCCAGTCTGTTCTTTCCATCAAGC TGTTGTGTGAAGAATTGTGTCATGAAATCAAGGTAACTAATTGATCTGTAATTCACTTTACCAT CTTTCACAAATTCCGTCAGAGGTCTGATCACCATATTCTCACACGGATAGTGGAACAGTGATGC TGAAATCCGCTCCTTATTTGGGTTTATCACGGCCCTGTGCTCAACACTTCTGAACTTTCCGTTA CTTAGGATCTGTACATATCAATAGCACATCACTCACATCAGTACAAAGGTGCAAGAGAGGTAGG CCATCCAACAACAATTTTCAGAAGCTTTTAGGTACGTTCTTTCTTCTTTGGTGCTTCCACAAGT TCTTTTTTTTAGATAATGGAAGCTTTTATTGAACTCATCCAGTTACATCAAAGTTCTTTGACAA GTGAAAGCATAATTAGTTCTTGGTCGGTACCTCAAGTGTGTCGCCAATGTTAACGATGAATGCA CCATTCGGAGCGTCTACGGATAACCACTTGCCATCTTTCTTGATCTGCAGGCCCTGCACGTCGT TAACCTGGAGCAGCAGTGTTAGGCCAACCACATCAGAGTGCGGCGAAATGCCCATCACCTTGTC AGATTGCAGGCACGGTGGGTAGTAGGTCATCCTTAAGCCTCGAGGCTGCTCTTCAAATATGCCT AAAAGAGCCTCTGGCTTAGCGCCCACAGCCTTAGCCATGAACTCAAACAAGCAGAGTGCCAGGC TTTTAGTCTCTGATGAGTATGCATCAAGGGATCGCCTATTTCCAGACATCTCCAGTTAAGAAGA GACAGATGCCTATCAAAAGCTAAATTACACATTTTATTTGGGTAGATCACCTGAAAGATGCAGG GGAAGTCGGCCAGAACCTCAAGTCCCTTGAATCGCTAGGATGGACTTGAAGATACAGCATGTCT GCCCAGTCAAGTTTCTGGTCCTCGGAGAAAACGAGGGCCTGTCCATAGCCTTCGAGGCTGTTGG GTAGCTGTGTGTACTCCTTCTTGGCGTCCAGTGGCTGGCTGAAGAAATCAACAATGTCTCTCTT GAGGTTTGCAATCACTTCATCTGGCACTCCATGGTTGATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002943* 						
					
						PMCS
						0.979723701

Conservation Information
Conserved circRNAs	osi_circ_002943*
PMCS	0.979723701

			
						 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
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os10g0558725_circ_ag.3

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