Plant Circular RNA Database

Detail information of Os11g0592000_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Os11g0592000_circ_ag.1
					
						ID in PlantcircBase
						osa_circ_009713
					
						Alias
						Os_ciR3658
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 22502527-22506337  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os11g0592000_circ_ig.1 						
					
						Support reads
						2
					
						Tissues
						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
						NA

General Information
CircRNA Name	Os11g0592000_circ_ag.1
ID in PlantcircBase	osa_circ_009713
Alias	Os_ciR3658
Organism	Oryza sativa
Position	chr11: 22502527-22506337 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os11g0592000_circ_ig.1
Support reads	2
Tissues	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	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  
						
							TGCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGATGGACCGCCTTCTGTGGGCCCGTTGGT
CCCACTGGTCAGGATGCATGTGGCAAATGTCTCTCGgtgacgaacacggcgacgggggcgcaga
tcacggcgaggatcgtggaccagtgcgccaatggcggccttgacctggactgggacaccgtctt
caccaaga

									
								

					

						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: 254
Transcript exons: 22502527-22502559,22506117-22506337
GTGACGAACACGGCGACGGGGGCGCAGATCACGCAACTATGGCCATGGCACAAGAGGCGTCCAA
CGTGCGTGCCACGTACCACTACTACCGTCCGGCGGAAAACAATTGGGATTTGGGGGCCCCGGCC
GTTAGCGCGTACTGTGCCACGTGGGATGCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGAT
GGACCGCCTTCTGTGGGCCCGTTGGTCCCACTGGTCAGGATGCATGTGGCAAATGTCTCTCG
						
					

						Genomic sequence
						
							GTGACGAACACGGCGACGGGGGCGCAGATCACGGCGAGGATCGTGGACCAGTGCGCCAATGGCG
GCCTTGACCTGGACTGGGACACCGTCTTCACCAAGATCGACACCGACGGCCAGGGCTACCAGAA
GGGCCACCTCATCGTCAACTACAAGTTCGTCGACTGCGGCGACAACTGATTAAGCTATAGCTGC
CTTAGCTAATTAATTACTCTCCATTATTACATGCTAATAAGGTTGCTGCTGCATATACATTATT
GTCGACAGGGCAGAGTAGAGTGGTAAACTCTGCCTGATGAATAAATTAAGCAGCTGATAAATAA
TTGTGATATGTTGATCGATCTGCTCAAGATCTTTGTATACATATTCACAGGAAGTATCAATTAA
TAGATTTCTCTCGAGTATAATGGACTCTGTGGATGGAGGTCAGCTGGAGATGATCAAACATATC
TTAAAAAAATCAATGGCGTCATATATTAAAAAACAGAGGTAGTATGACACTGTAATGGTCCGTA
TACCTTATATCAGTATATATGATGTAGTGATATTATCTAAAAGGTCTATAAAAATTCCTGGAAA
TGGATAATCTGCGACTACTAGGTTCTAAAATTCCTCCTGAAATGTTCTACGAGTTAGGTCGAAT
GCATCCATTTTTCTGCCTCTTTTTGTCCAAGTGTTCGGACTTGCTGACTCCAGACAAAAGAAAC
GCACCGACCCATTGGTTGGCAGTATGCATGAAAATTGTGGAATGCAGTGCCATTTCTCGCTTGA
AAGAATACTGCACTTTGGATGCGTGTGGTCTAGTGGTTAAGGTTTGCATTGCGTCTATTTGTCC
GATCTAGTATGCCATCAGTACTTTAAATATAAGAAAATCTCGGTTATTTAATAGAGTTTAAGGT
TGAGATGAAGTTGGTTTGATGTACTTTAGAGTTTATTACTGATTTGAAAATGTAACGTCTAGCC
ATGCATGCAAGTAACACTGAGTAATAGATACAGTAGTTGGATAAAAAATAATCCAACAAACTCC
CTTATATTCGTGAAGAAATGAAGAAGTCTAATCCTCATATTTAAATTGTGGAAGGATGGAGTCA
TATATATACTTCCATATCCCGGGATCCACCTATCAATGAGATAATAAGTGACAAATGAATTTAG
GTTTTATTTATAATGAAAATTGGTTATATTTATAGCCTCTGTCACTAGGCACATCGCACCGGGC
TCATAGATTTTTTTTAAAAAAAAAACTGAGCGATTGCTTCATTTGAAATTTGGAATGAGCGAGC
CTCAATCCCTGACACATCAATCACATGAAGTGCATTTGCGTAAACGGAAAGCTGTTAATTTTAT
CGACTTCGCGTAAACGGAAAGCTGTTATAATTTGACCGACTTCGCGTAAACGTTAAGCTCTTAT
CCTGACGTCACACTATAGTTCTGACTACTCCCTCTGTCCCTCCGTCCCATAATATAAGAGATTT
TGAATTTTTGTCTACACTCTTTGATCACTCGTCTTATTCAAAAAAATTTAGAATTATTATTTAT
TTTTTCTGTGACTTGCTTTATTATCTAAAATACTTTAAGCACAACTTTTCGTTTTTTATATTTG
CACAAATTTTTTGAATAAGACGAGTGATCAAACAGTGCAAGCAAAAACTCAAAATTCCTTATAT
TATAGGACGGAGGGAGTATTAGACACGTTGTAACAATCTGTTGCGTGGATTGTTTTGCTTTTAC
TTGACATCAAACTTATTTATGTGAGAAGGGATTTTTTTTTACCAACCAATATATGCATCTTTTT
TAAAATGGAAACTAAACCCCTCAAACAACCTAAAATAAAACTAAACCATATGAAATTCGCTCAT
ATAAATATTTGAACTCAGAATTTTAGGATGCTACTCAGGTCACGACAACCGCTAACAACATATC
ATTTAGCTAATGACATCAAACTTGTTGACTTAAATATAGATGGTAGACAATATACCGTCAACAC
GTGACTTGGTGGATCTTAAAATATGTCGGTCCATAATTCAAAAGTGCTTATAGAGACAGAATAT
GCATATGTACGTTCCTATATAAGTGAGTGTGTATGTATATATATAAGTACCTACACCTATCTTT
CGTTTAAAATAAATAGATAACTATTTCCCCTTAACTTAATCGTCGGCGAAGAGCTATTTTCGCT
AGCGGGTTTTAACCCCCATCTCTCCTTACAATTTTGCAAACGAAGGGCGTATGTCACCGCCAGC
AGAAAAAAACAATGTGTATTAAAAATTATTTTTCTAGTAGCAGTAGAAAGATCTGCATGCTTCT
CACTCCAACAGTCCAACTCGAAAGCCAATCACTGCAGCAGTCAACCAATTCCCGAGAACTTCAC
TGGAATTAAGACATCCATGAGACGTACATGTCCATTCGTGATCGTGTCGGTTCTTCCTCCCGTC
AAACACGACTTGACCTGCAATAATTTCAACTAAGCTGGATAGCTAGTACACATATTGCATCCAC
CGTTTGCTATTCATCAGCCGCGCGCAGTCCAATTTTAAAGTTTCAAATTTATCGTAGTTTATTT
TTTAATATTAATTTTATATAAAAAAGCATATATAAAAGTTTTTGTTTATAAATTATTTTTTAAG
TCGTTAATAAATACTCCCTCCTTCCCTAAATGTTTGACACCTTTGACTTTTTTAAACATGTTTG
ACCGTTCGTTTTATTCAAAAACTTTTGTGATATGTGTAAAACTATATGTATACATAAAAGTATA
TTTAACAATAAATCAAATGATAGAAAAAGAATTAATAATTACTTAAATTTTTTGAATAAGACGA
ACGGTCAAACATTTTTAAAAAAGTCAACGGTGTCAAACATTTTGGGATGAAGGTAGTATTATGT
CTTATAATCAACTGGTAGTCGAAACGGTAGGTTGTTTCAGTTTCTAACTATGAACCTCTAAACA
TAAACAATACTTGTCAAAGTGTATGGAAATAAAATTTTAGTTTGGAACGAAGGTAGTAGTTACT
TGTATGCATAACAATGCTTACTCATCCGTCCCCATCACGTGAAAAAAAATCTTTTCTTCACATA
AAAAAGAAAAACTCATCCATCCCCAATCTATATCATATCTATCACATACAGTCATACAGATATG
CAGCAATGCAAGCTCAGCTAGTCAGCTCTCACAGACAAGTCGAAACTTCTATCACAGATTTCTG
GTCGATGGATCGAGTTAGCCTAACTTCTCCGATTGTACAAGAGATATGCATTTGTTCGCCCAAA
ATTGCGGCTGAATTTGTATGCAATCAGTGAATATATATCCACGCAATTTGTCAACTTGAACACA
CAATTGGTTTTCCTTGGATACATGTGTGGAAATTTCACCGAAGTTGATTTTCAGAAGCAAGTGA
AAGAGTCAGCCATGACTTAGACGCGTTTACCTCCTTCTGGCTCTATTTAAGCTTGTGGAATCGA
AGCAACCTCCATTTCACTAGCATCTAGCAAGTGCACAACACATCTATAAATCGTAGTAACCACC
TTAGGTGAGATGATGGTCATGGCGATGATGAGAAGGGTGGTGATGGTGGTGGCGGTGCTGTGTG
CGGTAGCAACTATGGCCATGGCACAAGAGGCGTCCAACGTGCGTGCCACGTACCACTACTACCG
TCCGGCGGAAAACAATTGGGATTTGGGGGCCCCGGCCGTTAGCGCGTACTGTGCCACGTGGGAT
GCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGATGGACCGCCTTCTGTGGGCCCGTTGGTC
CCACTGGTCAGGATGCATGTGGCAAATGTCTCTCG
						
					

			
		

Sequences
Splice junction sequence	TGCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGATGGACCGCCTTCTGTGGGCCCGTTGGT CCCACTGGTCAGGATGCATGTGGCAAATGTCTCTCGgtgacgaacacggcgacgggggcgcaga tcacggcgaggatcgtggaccagtgcgccaatggcggccttgacctggactgggacaccgtctt caccaaga
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: 254 Transcript exons: 22502527-22502559,22506117-22506337 GTGACGAACACGGCGACGGGGGCGCAGATCACGCAACTATGGCCATGGCACAAGAGGCGTCCAA CGTGCGTGCCACGTACCACTACTACCGTCCGGCGGAAAACAATTGGGATTTGGGGGCCCCGGCC GTTAGCGCGTACTGTGCCACGTGGGATGCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGAT GGACCGCCTTCTGTGGGCCCGTTGGTCCCACTGGTCAGGATGCATGTGGCAAATGTCTCTCG
Genomic sequence	GTGACGAACACGGCGACGGGGGCGCAGATCACGGCGAGGATCGTGGACCAGTGCGCCAATGGCG GCCTTGACCTGGACTGGGACACCGTCTTCACCAAGATCGACACCGACGGCCAGGGCTACCAGAA GGGCCACCTCATCGTCAACTACAAGTTCGTCGACTGCGGCGACAACTGATTAAGCTATAGCTGC CTTAGCTAATTAATTACTCTCCATTATTACATGCTAATAAGGTTGCTGCTGCATATACATTATT GTCGACAGGGCAGAGTAGAGTGGTAAACTCTGCCTGATGAATAAATTAAGCAGCTGATAAATAA TTGTGATATGTTGATCGATCTGCTCAAGATCTTTGTATACATATTCACAGGAAGTATCAATTAA TAGATTTCTCTCGAGTATAATGGACTCTGTGGATGGAGGTCAGCTGGAGATGATCAAACATATC TTAAAAAAATCAATGGCGTCATATATTAAAAAACAGAGGTAGTATGACACTGTAATGGTCCGTA TACCTTATATCAGTATATATGATGTAGTGATATTATCTAAAAGGTCTATAAAAATTCCTGGAAA TGGATAATCTGCGACTACTAGGTTCTAAAATTCCTCCTGAAATGTTCTACGAGTTAGGTCGAAT GCATCCATTTTTCTGCCTCTTTTTGTCCAAGTGTTCGGACTTGCTGACTCCAGACAAAAGAAAC GCACCGACCCATTGGTTGGCAGTATGCATGAAAATTGTGGAATGCAGTGCCATTTCTCGCTTGA AAGAATACTGCACTTTGGATGCGTGTGGTCTAGTGGTTAAGGTTTGCATTGCGTCTATTTGTCC GATCTAGTATGCCATCAGTACTTTAAATATAAGAAAATCTCGGTTATTTAATAGAGTTTAAGGT TGAGATGAAGTTGGTTTGATGTACTTTAGAGTTTATTACTGATTTGAAAATGTAACGTCTAGCC ATGCATGCAAGTAACACTGAGTAATAGATACAGTAGTTGGATAAAAAATAATCCAACAAACTCC CTTATATTCGTGAAGAAATGAAGAAGTCTAATCCTCATATTTAAATTGTGGAAGGATGGAGTCA TATATATACTTCCATATCCCGGGATCCACCTATCAATGAGATAATAAGTGACAAATGAATTTAG GTTTTATTTATAATGAAAATTGGTTATATTTATAGCCTCTGTCACTAGGCACATCGCACCGGGC TCATAGATTTTTTTTAAAAAAAAAACTGAGCGATTGCTTCATTTGAAATTTGGAATGAGCGAGC CTCAATCCCTGACACATCAATCACATGAAGTGCATTTGCGTAAACGGAAAGCTGTTAATTTTAT CGACTTCGCGTAAACGGAAAGCTGTTATAATTTGACCGACTTCGCGTAAACGTTAAGCTCTTAT CCTGACGTCACACTATAGTTCTGACTACTCCCTCTGTCCCTCCGTCCCATAATATAAGAGATTT TGAATTTTTGTCTACACTCTTTGATCACTCGTCTTATTCAAAAAAATTTAGAATTATTATTTAT TTTTTCTGTGACTTGCTTTATTATCTAAAATACTTTAAGCACAACTTTTCGTTTTTTATATTTG CACAAATTTTTTGAATAAGACGAGTGATCAAACAGTGCAAGCAAAAACTCAAAATTCCTTATAT TATAGGACGGAGGGAGTATTAGACACGTTGTAACAATCTGTTGCGTGGATTGTTTTGCTTTTAC TTGACATCAAACTTATTTATGTGAGAAGGGATTTTTTTTTACCAACCAATATATGCATCTTTTT TAAAATGGAAACTAAACCCCTCAAACAACCTAAAATAAAACTAAACCATATGAAATTCGCTCAT ATAAATATTTGAACTCAGAATTTTAGGATGCTACTCAGGTCACGACAACCGCTAACAACATATC ATTTAGCTAATGACATCAAACTTGTTGACTTAAATATAGATGGTAGACAATATACCGTCAACAC GTGACTTGGTGGATCTTAAAATATGTCGGTCCATAATTCAAAAGTGCTTATAGAGACAGAATAT GCATATGTACGTTCCTATATAAGTGAGTGTGTATGTATATATATAAGTACCTACACCTATCTTT CGTTTAAAATAAATAGATAACTATTTCCCCTTAACTTAATCGTCGGCGAAGAGCTATTTTCGCT AGCGGGTTTTAACCCCCATCTCTCCTTACAATTTTGCAAACGAAGGGCGTATGTCACCGCCAGC AGAAAAAAACAATGTGTATTAAAAATTATTTTTCTAGTAGCAGTAGAAAGATCTGCATGCTTCT CACTCCAACAGTCCAACTCGAAAGCCAATCACTGCAGCAGTCAACCAATTCCCGAGAACTTCAC TGGAATTAAGACATCCATGAGACGTACATGTCCATTCGTGATCGTGTCGGTTCTTCCTCCCGTC AAACACGACTTGACCTGCAATAATTTCAACTAAGCTGGATAGCTAGTACACATATTGCATCCAC CGTTTGCTATTCATCAGCCGCGCGCAGTCCAATTTTAAAGTTTCAAATTTATCGTAGTTTATTT TTTAATATTAATTTTATATAAAAAAGCATATATAAAAGTTTTTGTTTATAAATTATTTTTTAAG TCGTTAATAAATACTCCCTCCTTCCCTAAATGTTTGACACCTTTGACTTTTTTAAACATGTTTG ACCGTTCGTTTTATTCAAAAACTTTTGTGATATGTGTAAAACTATATGTATACATAAAAGTATA TTTAACAATAAATCAAATGATAGAAAAAGAATTAATAATTACTTAAATTTTTTGAATAAGACGA ACGGTCAAACATTTTTAAAAAAGTCAACGGTGTCAAACATTTTGGGATGAAGGTAGTATTATGT CTTATAATCAACTGGTAGTCGAAACGGTAGGTTGTTTCAGTTTCTAACTATGAACCTCTAAACA TAAACAATACTTGTCAAAGTGTATGGAAATAAAATTTTAGTTTGGAACGAAGGTAGTAGTTACT TGTATGCATAACAATGCTTACTCATCCGTCCCCATCACGTGAAAAAAAATCTTTTCTTCACATA AAAAAGAAAAACTCATCCATCCCCAATCTATATCATATCTATCACATACAGTCATACAGATATG CAGCAATGCAAGCTCAGCTAGTCAGCTCTCACAGACAAGTCGAAACTTCTATCACAGATTTCTG GTCGATGGATCGAGTTAGCCTAACTTCTCCGATTGTACAAGAGATATGCATTTGTTCGCCCAAA ATTGCGGCTGAATTTGTATGCAATCAGTGAATATATATCCACGCAATTTGTCAACTTGAACACA CAATTGGTTTTCCTTGGATACATGTGTGGAAATTTCACCGAAGTTGATTTTCAGAAGCAAGTGA AAGAGTCAGCCATGACTTAGACGCGTTTACCTCCTTCTGGCTCTATTTAAGCTTGTGGAATCGA AGCAACCTCCATTTCACTAGCATCTAGCAAGTGCACAACACATCTATAAATCGTAGTAACCACC TTAGGTGAGATGATGGTCATGGCGATGATGAGAAGGGTGGTGATGGTGGTGGCGGTGCTGTGTG CGGTAGCAACTATGGCCATGGCACAAGAGGCGTCCAACGTGCGTGCCACGTACCACTACTACCG TCCGGCGGAAAACAATTGGGATTTGGGGGCCCCGGCCGTTAGCGCGTACTGTGCCACGTGGGAT GCTGACAAGCCGCTTGAATGGCGCCAGAAGTATGGATGGACCGCCTTCTGTGGGCCCGTTGGTC CCACTGGTCAGGATGCATGTGGCAAATGTCTCTCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.462645896

Conservation Information
Conserved circRNAs	NA
PMCS	0.462645896

			
						 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

circRNA

Detail information of Os11g0592000_circ_ag.1

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