Plant Circular RNA Database

Detail information of Os11g0286800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os11g0286800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_009081
					
						Alias
						Os11circ04409/Os_ciR2813
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 10355292-10357880  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os11g0286800						
					
						Parent gene annotation
						
							Squalene cyclase domain containing protein. (Os11t0286800-01);Si
milar to Cycloartenol synthase. (Os11t0286800-02);Similar to Cyc
loartenol synthase. (Os11t0286800-03);Similar to Cycloartenol sy
nthase. (Os11t0286800-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0286500_circ_ag.1 Os11g0286500_circ_ag.2 Os11g0286800_circ_g.1 Os11g0286800_circ_g.2 Os11g0286800_circ_g.4 Os11g0286800_circ_g.5 Os11g0286800_circ_g.6 Os11g0286800_circ_g.7 Os11g0286800_circ_g.8 Os11g0286800_circ_g.9 Os11g0286800_circ_g.10 Os11g0286800_circ_g.11 Os11g0286800_circ_g.12 Os11g0286800_circ_g.13 Os11g0286800_circ_g.14 Os11g0286800_circ_g.15 						
					
						Support reads
						2/4/2
					
						Tissues
						panicle/root/shoot, 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
						Os11t0286800-03:4
Os11t0286800-04:5
Os11t0286800-01:5

General Information
CircRNA Name	Os11g0286800_circ_g.3
ID in PlantcircBase	osa_circ_009081
Alias	Os11circ04409/Os_ciR2813
Organism	Oryza sativa
Position	chr11: 10355292-10357880 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os11g0286800
Parent gene annotation	Squalene cyclase domain containing protein. (Os11t0286800-01);Si milar to Cycloartenol synthase. (Os11t0286800-02);Similar to Cyc loartenol synthase. (Os11t0286800-03);Similar to Cycloartenol sy nthase. (Os11t0286800-04)
Parent gene strand	-
Alternative splicing	Os11g0286500_circ_ag.1 Os11g0286500_circ_ag.2 Os11g0286800_circ_g.1 Os11g0286800_circ_g.2 Os11g0286800_circ_g.4 Os11g0286800_circ_g.5 Os11g0286800_circ_g.6 Os11g0286800_circ_g.7 Os11g0286800_circ_g.8 Os11g0286800_circ_g.9 Os11g0286800_circ_g.10 Os11g0286800_circ_g.11 Os11g0286800_circ_g.12 Os11g0286800_circ_g.13 Os11g0286800_circ_g.14 Os11g0286800_circ_g.15
Support reads	2/4/2
Tissues	panicle/root/shoot, 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	Os11t0286800-03:4 Os11t0286800-04:5 Os11t0286800-01:5

			
						 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  
						
							CCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTAC
TTGGGTTGGTGGAATCTTTGATAACAACAACACCGCctcaacttgacaaccgaggtaatcctct
ccccatccaccagtacttagctgctttgacagcaagaagttgcatgccttcctaatagacaaac
tgttttgg

									
								

					

						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: 525
Transcript exons: 10355292-10355469,10355561-10355704,10355813-10355859,10
357498-10357554,10357782-10357880
CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG
AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT
TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCACGATCCATCATT
TTTTTGTTTTTTCTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGG
TATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGT
ACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACTCCACCCATGGAGT
TGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGAAAGTAGGCAGTCA
ATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATA
ACAACAACACCGC
Transcript length: 538
Transcript exons: 10355292-10355469,10355561-10355704,10355800-10355859,10
357498-10357554,10357782-10357880
CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG
AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT
TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCACGATCCATCATT
TTTTTGTTTTTTCTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGG
TATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGT
ACATGTCTCGCTTACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACT
CCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGA
AAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGT
GGAATCTTTGATAACAACAACACCGC
						
					

						Genomic sequence
						
							CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG
AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT
TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCTGTGATTTTAGTT
TGTAATATTAGCTTAAAGATATATAAAGTTTACATAACATGCGAAATTGTACTAAAGTAGGAAT
ACACCATGCATACCACGATCCATCATTTTTTTGTTTTTTCTCGATGAACAACACACCATTTTTG
ATAATTCTATCTATCTCTTCACGGCGGTATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTT
GAATTAGTGATGATGTGCATTCCACGTACCTGCATATTTGTTGCAGGCCTTGAGTTATTTAATT
GATTTCCTTTTGTAAATCATAAGCCGAACATATATAATTCTGATAGTCAAGGATGAACACATGT
CTCGCTTACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACTATATAT
ATGCCAACAATAATAGCTCAAAGTTAGTATCACGCGAAGTAGAAGTTATTTTGACAAGATAACC
AATGAAGAAGAGATGTAATTTGCCCATGATGGGTATTTACCAGGATTCAGATATTCAACGAAAG
CTATGCATTCTCTTAACTGGCCTCCAGTCAAATAAGGGAATGCCATATTTATTTAAGGTCTCAA
TTTGTCGGATACTGAATAAGTGAGTATATTTGAGTGTTAATTAGATTCTTTTTTTAATGACATT
TGTAGCATAGTGGTGTGCATGAAACTCGGAAACAAAATATACTCTTATCATGATGAAATTCTCA
TAAATTTGTTAGCATGTTCAGAACATATGACTTATCGTATTAGTTTGTCTGGTGGATATTCACA
TATTAATCTAAAAAACACAAAGCCCAAAGAATTTTATTATTTTCGAAGATTCTTAAATTTTACT
TGTGAACCTTTTTAGCTGGTGGCATGATGACCTGGCAAGTTATTATTGTCACTCTGGGAACATC
GGAGCTAACATGATCAGTTGTAAAGCACCACCACATCGTCTCCATCTCCAGAGGTACGGTGAAG
GTGATTCCTCCTTCGGATCCGCTGACGAAGGCAGGATTGTACGCAGCAGGATTCGGTGTTGGTG
GAATGGGATTAACCCAATCCTACACCTTGTTTTGATCTCCCAAGGGAAATTCTCCCCCAAATTG
GCAAACAAAGCCTGACCATTAGGCGAGCATTGCATCGCTGGTTGGTAGCCGCTGTGACCAAACT
ACCTGGCCAGATATATTATTTCACTCTTTCGCAATTGTTACTATCGGTAATCCTCAGTTTGGCT
GATTGACTTCCACTATTCCTATTTAATTGGAACCAATTATTTAACATGCATTAAGTCAGATCAT
CTAGAAAAGAAAGGTCGTCGGATCACTTGCATTCTTAGAGCAAGTTTAATAGTATAGTCATGTA
CTAGCTTCAATTCACCTACAGCCAATCTAACAGCTCATTCATACAATAGTTACATACTACACTA
TTAATATCTAGTCCCACCTGTCATACACACACAATGCGTCTTGGAGTCCGTGCTACAGCTGGCT
ACAAATCTATAGCCTGCTGCTCTTCTTTCTCCTTATTTATCTTCTTAAAATATGTTTGTAGCTG
GTTTATAGCCTGCTATTGTACCTGCTCTTAATCTCAACCATTATTGGCTCACTCCTATACTGTA
CAACCATAAATGTATTGTGTAGGATATATAATTGTTCCGTATTAATTATAGCATAACATGCACT
GAGCATTTTATTGTCTTACCTTTCATTCAATTTGGTTTTTAAGTGCTTTTATGTCTAGAAAGAC
ACCAAAAGATTCTAATTTTCTTCGTAAGTGACTTTGTTATGTAGGACTTTACTATTTTTTCAAT
CCTACTTGTCATGAATCTTGACTTTATGTGTGTGCTTGGAGAATTTTAGATTTATACACTTAGA
GCTCTATGTGAGCACACCCACAGTGATTGTCCAGGGTCAACCACAGTCAAAGCATAAGTTTTCT
TCTACATTTAGGTAACTGTGATACAAAAGATTTGCAAGAAGATGACACGCAATTATTTAAATGC
AAAACAATGCTTCCTCAATAATACACTCACCTCCACCCATGGAGTTGTTCTCTTAGATTCTGCA
GAGGACAAAGTGCCATCCTTGTTCTTTGAAAGAATGTACAAAATAGCTGTGTCAGCTAACTTTT
CAAGTTTAAAATAAGTATCATACAACTTATTTAATCATGTATTTGAAGGTGGATTGAGTTTCAC
AATTGGAATAATCAAATTGTGCACTTCACTATTGTAATCTTGTTGTGCTTAATAAGTGAATTTA
AATATTACAAAATACTACAAATAATAGTAATGATATGCTGGAATTCTTATTCTCATACCACATA
TGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTT
GGTGGAATCTTTGATAACAACAACACCGC
						
					

			
		

Sequences
Splice junction sequence	CCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTAC TTGGGTTGGTGGAATCTTTGATAACAACAACACCGCctcaacttgacaaccgaggtaatcctct ccccatccaccagtacttagctgctttgacagcaagaagttgcatgccttcctaatagacaaac tgttttgg
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: 525 Transcript exons: 10355292-10355469,10355561-10355704,10355813-10355859,10 357498-10357554,10357782-10357880 CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCACGATCCATCATT TTTTTGTTTTTTCTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGG TATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGT ACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACTCCACCCATGGAGT TGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGAAAGTAGGCAGTCA ATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATA ACAACAACACCGC Transcript length: 538 Transcript exons: 10355292-10355469,10355561-10355704,10355800-10355859,10 357498-10357554,10357782-10357880 CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCACGATCCATCATT TTTTTGTTTTTTCTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGG TATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGT ACATGTCTCGCTTACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACT CCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGA AAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGT GGAATCTTTGATAACAACAACACCGC
Genomic sequence	CTCAACTTGACAACCGAGGTAATCCTCTCCCCATCCACCAGTACTTAGCTGCTTTGACAGCAAG AAGTTGCATGCCTTCCTAATAGACAAACTGTTTTGGAATGTTCTTCCTGCCGCAACCAGTCCTT TTATAGCAAAGAAGGTAGCATAAGTAAAACAGACAGCCCAAGATCCATACCTGTGATTTTAGTT TGTAATATTAGCTTAAAGATATATAAAGTTTACATAACATGCGAAATTGTACTAAAGTAGGAAT ACACCATGCATACCACGATCCATCATTTTTTTGTTTTTTCTCGATGAACAACACACCATTTTTG ATAATTCTATCTATCTCTTCACGGCGGTATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTT GAATTAGTGATGATGTGCATTCCACGTACCTGCATATTTGTTGCAGGCCTTGAGTTATTTAATT GATTTCCTTTTGTAAATCATAAGCCGAACATATATAATTCTGATAGTCAAGGATGAACACATGT CTCGCTTACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACTATATAT ATGCCAACAATAATAGCTCAAAGTTAGTATCACGCGAAGTAGAAGTTATTTTGACAAGATAACC AATGAAGAAGAGATGTAATTTGCCCATGATGGGTATTTACCAGGATTCAGATATTCAACGAAAG CTATGCATTCTCTTAACTGGCCTCCAGTCAAATAAGGGAATGCCATATTTATTTAAGGTCTCAA TTTGTCGGATACTGAATAAGTGAGTATATTTGAGTGTTAATTAGATTCTTTTTTTAATGACATT TGTAGCATAGTGGTGTGCATGAAACTCGGAAACAAAATATACTCTTATCATGATGAAATTCTCA TAAATTTGTTAGCATGTTCAGAACATATGACTTATCGTATTAGTTTGTCTGGTGGATATTCACA TATTAATCTAAAAAACACAAAGCCCAAAGAATTTTATTATTTTCGAAGATTCTTAAATTTTACT TGTGAACCTTTTTAGCTGGTGGCATGATGACCTGGCAAGTTATTATTGTCACTCTGGGAACATC GGAGCTAACATGATCAGTTGTAAAGCACCACCACATCGTCTCCATCTCCAGAGGTACGGTGAAG GTGATTCCTCCTTCGGATCCGCTGACGAAGGCAGGATTGTACGCAGCAGGATTCGGTGTTGGTG GAATGGGATTAACCCAATCCTACACCTTGTTTTGATCTCCCAAGGGAAATTCTCCCCCAAATTG GCAAACAAAGCCTGACCATTAGGCGAGCATTGCATCGCTGGTTGGTAGCCGCTGTGACCAAACT ACCTGGCCAGATATATTATTTCACTCTTTCGCAATTGTTACTATCGGTAATCCTCAGTTTGGCT GATTGACTTCCACTATTCCTATTTAATTGGAACCAATTATTTAACATGCATTAAGTCAGATCAT CTAGAAAAGAAAGGTCGTCGGATCACTTGCATTCTTAGAGCAAGTTTAATAGTATAGTCATGTA CTAGCTTCAATTCACCTACAGCCAATCTAACAGCTCATTCATACAATAGTTACATACTACACTA TTAATATCTAGTCCCACCTGTCATACACACACAATGCGTCTTGGAGTCCGTGCTACAGCTGGCT ACAAATCTATAGCCTGCTGCTCTTCTTTCTCCTTATTTATCTTCTTAAAATATGTTTGTAGCTG GTTTATAGCCTGCTATTGTACCTGCTCTTAATCTCAACCATTATTGGCTCACTCCTATACTGTA CAACCATAAATGTATTGTGTAGGATATATAATTGTTCCGTATTAATTATAGCATAACATGCACT GAGCATTTTATTGTCTTACCTTTCATTCAATTTGGTTTTTAAGTGCTTTTATGTCTAGAAAGAC ACCAAAAGATTCTAATTTTCTTCGTAAGTGACTTTGTTATGTAGGACTTTACTATTTTTTCAAT CCTACTTGTCATGAATCTTGACTTTATGTGTGTGCTTGGAGAATTTTAGATTTATACACTTAGA GCTCTATGTGAGCACACCCACAGTGATTGTCCAGGGTCAACCACAGTCAAAGCATAAGTTTTCT TCTACATTTAGGTAACTGTGATACAAAAGATTTGCAAGAAGATGACACGCAATTATTTAAATGC AAAACAATGCTTCCTCAATAATACACTCACCTCCACCCATGGAGTTGTTCTCTTAGATTCTGCA GAGGACAAAGTGCCATCCTTGTTCTTTGAAAGAATGTACAAAATAGCTGTGTCAGCTAACTTTT CAAGTTTAAAATAAGTATCATACAACTTATTTAATCATGTATTTGAAGGTGGATTGAGTTTCAC AATTGGAATAATCAAATTGTGCACTTCACTATTGTAATCTTGTTGTGCTTAATAAGTGAATTTA AATATTACAAAATACTACAAATAATAGTAATGATATGCTGGAATTCTTATTCTCATACCACATA TGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTT GGTGGAATCTTTGATAACAACAACACCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.314982554

Conservation Information
Conserved circRNAs	NA
PMCS	0.314982554

			
						 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

circRNA

Detail information of Os11g0286800_circ_g.3

Address

Any questions?

Supported by