Plant Circular RNA Database

Detail information of Os12g0623900_circ_ag.11

			
						 General Information
					
						CircRNA Name
						Os12g0623900_circ_ag.11
					
						ID in PlantcircBase
						osa_circ_012406
					
						Alias
						Os_ciR1117
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 26650198-26661955  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
						
							Os12g0623950_circ_ag.1 Os12g0623950_circ_g.1 Os12g0623950_circ_g.2 Os12g0623950_circ_ag.3 Os12g0623950_circ_g.4 Os12g0623950_circ_g.5 Os12g0623950_circ_g.6 Os12g0623950_circ_g.7 Os12g0623950_circ_ag.8 Os12g0623950_circ_ag.9 Os12g0623950_circ_ag.10 Os12g0623950_circ_g.11 Os12g0623950_circ_g.12 Os12g0623950_circ_ag.13 Os12g0623950_circ_ag.14 Os12g0623950_circ_ag.15 Os12g0623900_circ_g.1 Os12g0623900_circ_g.2 Os12g0623900_circ_g.3 Os12g0623900_circ_ag.1 Os12g0623900_circ_ag.2 Os12g0623900_circ_g.3 Os12g0623900_circ_g.4 Os12g0623900_circ_ag.5 Os12g0623900_circ_ag.6 Os12g0623900_circ_g.7 Os12g0623900_circ_ag.8 Os12g0623900_circ_g.9 Os12g0623900_circ_ag.10 Os12g0623900_circ_ag.12 Os12g0624000_circ_g.1 Os12g0624000_circ_g.2 Os12g0624000_circ_g.3 						
					
						Support reads
						2777/867
					
						Tissues
						root/anther, 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  
						
							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	Os12g0623900_circ_ag.11
ID in PlantcircBase	osa_circ_012406
Alias	Os_ciR1117
Organism	Oryza sativa
Position	chr12: 26650198-26661955 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	Os12g0623950_circ_ag.1 Os12g0623950_circ_g.1 Os12g0623950_circ_g.2 Os12g0623950_circ_ag.3 Os12g0623950_circ_g.4 Os12g0623950_circ_g.5 Os12g0623950_circ_g.6 Os12g0623950_circ_g.7 Os12g0623950_circ_ag.8 Os12g0623950_circ_ag.9 Os12g0623950_circ_ag.10 Os12g0623950_circ_g.11 Os12g0623950_circ_g.12 Os12g0623950_circ_ag.13 Os12g0623950_circ_ag.14 Os12g0623950_circ_ag.15 Os12g0623900_circ_g.1 Os12g0623900_circ_g.2 Os12g0623900_circ_g.3 Os12g0623900_circ_ag.1 Os12g0623900_circ_ag.2 Os12g0623900_circ_g.3 Os12g0623900_circ_g.4 Os12g0623900_circ_ag.5 Os12g0623900_circ_ag.6 Os12g0623900_circ_g.7 Os12g0623900_circ_ag.8 Os12g0623900_circ_g.9 Os12g0623900_circ_ag.10 Os12g0623900_circ_ag.12 Os12g0624000_circ_g.1 Os12g0624000_circ_g.2 Os12g0624000_circ_g.3
Support reads	2777/867
Tissues	root/anther, 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	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  
						
							GAGGCTGACATTTTCACACTTGCTCAGGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAG
AAGGAGGTCGAGGACCTTGAGGCTGGTGGTATACAGgtcatccaaatcgatgaggctgctttga
gagaaggtctgccactccgcaaggcggagcatgctttctacttggactgggctgttcactcctt
cagaatca

									
								

					

						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: 1924
Transcript exons: 26650198-26650328,26650406-26650641,26658611-26658826,26
658925-26659014,26659755-26659884,26659961-26660153,2666
0257-26660322,26660572-26660738,26660863-26660948,266610
39-26661207,26661284-26661392,26661542-26661796,26661880
-26661955
GTCATCCAAATCGATGAGGCTGCTTTGAGAGAAGGTCTGCCACTCCGCAAGGCGGAGCATGCTT
TCTACTTGGACTGGGCTGTTCACTCCTTCAGAATCACCAACTGCGGTGTTCAGGACACCACCCA
GGTACAGATCCACACCCACATGTGCTACTCTAACTTCAACGACATCATCCACTCCATCATCAAC
ATGGACGCTGATGTGATCACCATCGAGAACTCCCGGTCCGACGAGAAGCTGCTCTCCGTCTTCC
GCGAGGGTGTGAAGTATGGTGCTGGCATTGGCCCTGGTGTCTATGACATCCACTCCCCAAGGAT
CCCGTCCACAGAGGAGATTGCGGACCGCGTCAACAAGATGCTCGCGGCTGGAAGCAAATGGCTG
ACGCTGGGATCAAGTATATCCCCAGCAACACCTTCTCGTACTATGATCAGGTTCTTGACACGAC
CGCCATGCTTGGTGCTGTCCCAGAGCGCTACTCATGGACCGGTGGAGAGATTGGGTTCAGCACC
TACTTCTCGATGGCTAGGGGAAATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGACA
CCAACTACCACTTTATCGTCCCTGAACTTGGTCCCAACACCAAGTTCTCCTACTCTTCCCACAA
GGCTGTGAATGAATACAAGGAGGCCAAGGCGGTGCTCGGCGTTGACACCGTGCCAGTACTTGTT
GGACCAGTTTCATACTTGTTGCTCTCCAAGCCTGCCAAGGGTGTAGAGAAGTCGTTCGCTCTTC
TTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAGGGAGGTTATTGCTGAGTTGAAGGCAGCTG
GTGCTACATGGATTCAGTTTGATGAGCCCACACTTGTTCTTGACCTTGACTCTCACCAATTGGC
TGCATTCTCTGCAGCGTACACAGAACTCGAGTCGGCACTTTCTGGATTGAATGTGCTTATTGAG
ACATACTTCGCTGACATTCCTGCTGAATCATACAAGGACCCTCACATCCCTGAACAGCGTGACT
GCTTATGGTTTTGACCTTATCCGTGGTTCCAAGACTCTAGACAAGCTTGTGGTCTCGACTTCCT
GCTCACTCATGCACACCGCTGTGGATCTTGTAAATGAGACCAAGCTCGATAGCGAGATTAAGTC
ATGGCTTGCTTTTGCTGCCCAAAAAGTGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGA
CAGAAGGATGAGGCAGGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCA
CCTCGTGTGACAAACGAGGAAGTCCAAAAGGCTGTGCTGCTGCTCTGAGGGGGTCTGACCACCG
CCGTGCTACCAATGTTAGCGCTAGGTTGGACGCACAGCAGAAGAAGCTCAACCTTCCAGTCCTT
CCTACAACCACAATTGGTTCATTCCCACAGACTGTGGAGCTCAGGAGAGTCCGCCGTGAGTACA
AGGCTAAAAAGTAGGATCTCTGAGGATGAGTACGTCAGTGCCATCAAGGAGGAAATCAGCAAGG
TTGTTAAGATCCAGGAAGAGCTTGACATTGATGTGCTTGTTCACGGCGAGCCTGAGGAGAGAAA
CGATATGGTTGAGTACTTTGGTGAGCAGCTTTCTGGTTTTGCATTTACTGCCAATGGATGGGTG
CAATCCTATGGATCCCGGTGTGTCAAGCCACCAATTATCTATGGTGATGTGAGCCGCCCCAACG
CCATGACTGTGTTCTGGTCCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTT
GACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGGTCAGGTTTG
AGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGACCTTGAGGCTGGTGGTAT
ACAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	GAGGCTGACATTTTCACACTTGCTCAGGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAG AAGGAGGTCGAGGACCTTGAGGCTGGTGGTATACAGgtcatccaaatcgatgaggctgctttga gagaaggtctgccactccgcaaggcggagcatgctttctacttggactgggctgttcactcctt cagaatca
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: 1924 Transcript exons: 26650198-26650328,26650406-26650641,26658611-26658826,26 658925-26659014,26659755-26659884,26659961-26660153,2666 0257-26660322,26660572-26660738,26660863-26660948,266610 39-26661207,26661284-26661392,26661542-26661796,26661880 -26661955 GTCATCCAAATCGATGAGGCTGCTTTGAGAGAAGGTCTGCCACTCCGCAAGGCGGAGCATGCTT TCTACTTGGACTGGGCTGTTCACTCCTTCAGAATCACCAACTGCGGTGTTCAGGACACCACCCA GGTACAGATCCACACCCACATGTGCTACTCTAACTTCAACGACATCATCCACTCCATCATCAAC ATGGACGCTGATGTGATCACCATCGAGAACTCCCGGTCCGACGAGAAGCTGCTCTCCGTCTTCC GCGAGGGTGTGAAGTATGGTGCTGGCATTGGCCCTGGTGTCTATGACATCCACTCCCCAAGGAT CCCGTCCACAGAGGAGATTGCGGACCGCGTCAACAAGATGCTCGCGGCTGGAAGCAAATGGCTG ACGCTGGGATCAAGTATATCCCCAGCAACACCTTCTCGTACTATGATCAGGTTCTTGACACGAC CGCCATGCTTGGTGCTGTCCCAGAGCGCTACTCATGGACCGGTGGAGAGATTGGGTTCAGCACC TACTTCTCGATGGCTAGGGGAAATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGACA CCAACTACCACTTTATCGTCCCTGAACTTGGTCCCAACACCAAGTTCTCCTACTCTTCCCACAA GGCTGTGAATGAATACAAGGAGGCCAAGGCGGTGCTCGGCGTTGACACCGTGCCAGTACTTGTT GGACCAGTTTCATACTTGTTGCTCTCCAAGCCTGCCAAGGGTGTAGAGAAGTCGTTCGCTCTTC TTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAAGGGAGGTTATTGCTGAGTTGAAGGCAGCTG GTGCTACATGGATTCAGTTTGATGAGCCCACACTTGTTCTTGACCTTGACTCTCACCAATTGGC TGCATTCTCTGCAGCGTACACAGAACTCGAGTCGGCACTTTCTGGATTGAATGTGCTTATTGAG ACATACTTCGCTGACATTCCTGCTGAATCATACAAGGACCCTCACATCCCTGAACAGCGTGACT GCTTATGGTTTTGACCTTATCCGTGGTTCCAAGACTCTAGACAAGCTTGTGGTCTCGACTTCCT GCTCACTCATGCACACCGCTGTGGATCTTGTAAATGAGACCAAGCTCGATAGCGAGATTAAGTC ATGGCTTGCTTTTGCTGCCCAAAAAGTGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGA CAGAAGGATGAGGCAGGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGAGGTCATCA CCTCGTGTGACAAACGAGGAAGTCCAAAAGGCTGTGCTGCTGCTCTGAGGGGGTCTGACCACCG CCGTGCTACCAATGTTAGCGCTAGGTTGGACGCACAGCAGAAGAAGCTCAACCTTCCAGTCCTT CCTACAACCACAATTGGTTCATTCCCACAGACTGTGGAGCTCAGGAGAGTCCGCCGTGAGTACA AGGCTAAAAAGTAGGATCTCTGAGGATGAGTACGTCAGTGCCATCAAGGAGGAAATCAGCAAGG TTGTTAAGATCCAGGAAGAGCTTGACATTGATGTGCTTGTTCACGGCGAGCCTGAGGAGAGAAA CGATATGGTTGAGTACTTTGGTGAGCAGCTTTCTGGTTTTGCATTTACTGCCAATGGATGGGTG CAATCCTATGGATCCCGGTGTGTCAAGCCACCAATTATCTATGGTGATGTGAGCCGCCCCAACG CCATGACTGTGTTCTGGTCCAAGATGGCGCAGAGCATGACCTCTCGCCCCATGAAGGGAATGTT GACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGTCAGGAATGACCAGCCGAGGTCAGGTTTG AGACATGCTACCAGATTGCTCTTGCCATCAAGAAGGAGGTCGAGGACCTTGAGGCTGGTGGTAT ACAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010008 						
					
						PMCS
						0.723566765

Conservation Information
Conserved circRNAs	osi_circ_010008
PMCS	0.723566765

			
						 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 Os12g0623900_circ_ag.11

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