Plant Circular RNA Database

Detail information of Os08g0471900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0471900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037320
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 23221289-23222664  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0471900						
					
						Parent gene annotation
						
							Zinc finger, ZPR1-type domain containing protein. (Os08t0471900-
01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0471900_circ_g.1 Os08g0471900_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os08t0471900-01:4

General Information
CircRNA Name	Os08g0471900_circ_g.3
ID in PlantcircBase	osa_circ_037320
Alias	NA
Organism	Oryza sativa
Position	chr8: 23221289-23222664 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0471900
Parent gene annotation	Zinc finger, ZPR1-type domain containing protein. (Os08t0471900- 01)
Parent gene strand	-
Alternative splicing	Os08g0471900_circ_g.1 Os08g0471900_circ_g.2
Support reads	1
Tissues	shoot
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	Os08t0471900-01:4

			
						 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  
						
							TTCTGTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATCCTTTCATAGAAT
CTCACAGATAACAAAGGATCTGATGAAGGTGCATTCctttatgacatcacgtgtaagatctttt
ccgttctgcacacgtagtgtaattttctttcctttggctgggatttcaccaccaggcttcaact
gatagaac

									
								

					

						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: 496
Transcript exons: 23221289-23221378,23221485-23221555,23222250-23222316,23
222397-23222664
CTTTATGACATCACGTGTAAGATCTTTTCCGTTCTGCACACGTAGTGTAATTTTCTTTCCTTTG
GCTGGGATTTCACCACCAGGCTTCAACTCTGAGTTGCGATAGCCGCACATGTCGCATGTTGTTG
CCATAACAATAACCTCACGAAAATATGGGATTTTTGTAGCAAAGAAACGAGTGACACACTCAGT
TCCACAGGCCCCACATGTTGATGGCAAAGTATCAACCTCTTCTGGTGCTGAATATCTGCACAGC
GCTGCAGCAACTTCATCAGGGTTTCCTTGAGCTATAGCACGGCGACCTGCAACAGCTCCAACCG
AACCGTGGGGCTCCTGCAACACCTCAGAGTTCCCTTCCACAGTTGAAGCATGATTAACAGGCTG
ATCCCCAGGTTCTTCTGTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATC
CTTTCATAGAATCTCACAGATAACAAAGGATCTGATGAAGGTGCATTC
						
					

						Genomic sequence
						
							CTTTATGACATCACGTGTAAGATCTTTTCCGTTCTGCACACGTAGTGTAATTTTCTTTCCTTTG
GCTGGGATTTCACCACCAGGCTTCAACTGATAGAACAAAAAGAAAGCCGTTTTAAGTTCAGAGT
TGTCACCAATGTACAACATTTTTTTTCTAAAAGAAATGCATGTATGACTACGGAAGTCTGGAAC
TGACCTCTGAGTTGCGATAGCCGCACATGTCGCATGTTGTTGCCATAACAATAACCTCACGAAA
ATATGGGATTTCTAACCAAAGGTCAAAGACCAGACACTAGCAAATATTAATAATTAGCAGTACA
ATATCACTAGAGAGTTCTGTACGATTCAAGGATCCAATCAAAACATGTTACAACTACACTGCGT
GACAGCAATTACTGTGGAACCTAGCTCCACTAATCATATGCTACAAACCAGCCAGTAAAAGACA
TGCATGCTTTGGCCATCAATCCATCATCCAGCACGGTCACACACAAAAAAAATTCCATCAATCC
CCATGTTTAGATCATAAAACCATTACGTAAGCCTAAATTGGCTGTATCTCAGGACACTATAAAC
CATATTTCCAAGCAATTTGACCGTTACTGCCAATTTTCCAGCATATTATTTATGCTTTGCACTA
TGATATACTCCCTAACACATAAAGCATGCAAGTAACCAGCAAGAACATTCTAAATTAAAGTCCC
AAATATTTCTTAGCCCCTCATTTTTTAAGAGGAACATTCTAAATTAAAGTCCCAAATATTTCTT
AGCCCCTCATTTTTCAAAGAGGCCAAGATTGATCACAGAATCAAACAAGCATATAGAAACACTA
CAGATGACCTATTTGACTATTGCTGATATTATCAACATGTTTTACTTAAAAACGAACATACTCT
ATTTCTCTATTCTTAGTTTAAGAGTCCATATGGAAGAAATAGTGAACAAAAGGTGAAAAGGATA
CTTGTAGCAAAGAAACGAGTGACACACTCAGTTCCACAGGCCCCACATGTTGATGGCAAAGTAT
CAACCTGACCAAGTAAATTTTTGTAAGCATGAATGAACATTAGTCTTGAATAAGGTAATTGCCG
TACAACTGAATAAAGCATACCTCTTCTGGTGCTGAATATCTGCACAGCGCTGCAGCAACTTCAT
CAGGGTTTCCTTGAGCTATAGCACGGCGACCTGCAACAGCTCCAACCGAACCGTGGGGCTCCTG
CAACACCTCAGAGTTCCCTTCCACAGTTGAAGCATGATTAACAGGCTGATCCCCAGGTTCTTCT
GTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATCCTTTCATAGAATCTCA
CAGATAACAAAGGATCTGATGAAGGTGCATTC
						
					

			
		

Sequences
Splice junction sequence	TTCTGTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATCCTTTCATAGAAT CTCACAGATAACAAAGGATCTGATGAAGGTGCATTCctttatgacatcacgtgtaagatctttt ccgttctgcacacgtagtgtaattttctttcctttggctgggatttcaccaccaggcttcaact gatagaac
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: 496 Transcript exons: 23221289-23221378,23221485-23221555,23222250-23222316,23 222397-23222664 CTTTATGACATCACGTGTAAGATCTTTTCCGTTCTGCACACGTAGTGTAATTTTCTTTCCTTTG GCTGGGATTTCACCACCAGGCTTCAACTCTGAGTTGCGATAGCCGCACATGTCGCATGTTGTTG CCATAACAATAACCTCACGAAAATATGGGATTTTTGTAGCAAAGAAACGAGTGACACACTCAGT TCCACAGGCCCCACATGTTGATGGCAAAGTATCAACCTCTTCTGGTGCTGAATATCTGCACAGC GCTGCAGCAACTTCATCAGGGTTTCCTTGAGCTATAGCACGGCGACCTGCAACAGCTCCAACCG AACCGTGGGGCTCCTGCAACACCTCAGAGTTCCCTTCCACAGTTGAAGCATGATTAACAGGCTG ATCCCCAGGTTCTTCTGTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATC CTTTCATAGAATCTCACAGATAACAAAGGATCTGATGAAGGTGCATTC
Genomic sequence	CTTTATGACATCACGTGTAAGATCTTTTCCGTTCTGCACACGTAGTGTAATTTTCTTTCCTTTG GCTGGGATTTCACCACCAGGCTTCAACTGATAGAACAAAAAGAAAGCCGTTTTAAGTTCAGAGT TGTCACCAATGTACAACATTTTTTTTCTAAAAGAAATGCATGTATGACTACGGAAGTCTGGAAC TGACCTCTGAGTTGCGATAGCCGCACATGTCGCATGTTGTTGCCATAACAATAACCTCACGAAA ATATGGGATTTCTAACCAAAGGTCAAAGACCAGACACTAGCAAATATTAATAATTAGCAGTACA ATATCACTAGAGAGTTCTGTACGATTCAAGGATCCAATCAAAACATGTTACAACTACACTGCGT GACAGCAATTACTGTGGAACCTAGCTCCACTAATCATATGCTACAAACCAGCCAGTAAAAGACA TGCATGCTTTGGCCATCAATCCATCATCCAGCACGGTCACACACAAAAAAAATTCCATCAATCC CCATGTTTAGATCATAAAACCATTACGTAAGCCTAAATTGGCTGTATCTCAGGACACTATAAAC CATATTTCCAAGCAATTTGACCGTTACTGCCAATTTTCCAGCATATTATTTATGCTTTGCACTA TGATATACTCCCTAACACATAAAGCATGCAAGTAACCAGCAAGAACATTCTAAATTAAAGTCCC AAATATTTCTTAGCCCCTCATTTTTTAAGAGGAACATTCTAAATTAAAGTCCCAAATATTTCTT AGCCCCTCATTTTTCAAAGAGGCCAAGATTGATCACAGAATCAAACAAGCATATAGAAACACTA CAGATGACCTATTTGACTATTGCTGATATTATCAACATGTTTTACTTAAAAACGAACATACTCT ATTTCTCTATTCTTAGTTTAAGAGTCCATATGGAAGAAATAGTGAACAAAAGGTGAAAAGGATA CTTGTAGCAAAGAAACGAGTGACACACTCAGTTCCACAGGCCCCACATGTTGATGGCAAAGTAT CAACCTGACCAAGTAAATTTTTGTAAGCATGAATGAACATTAGTCTTGAATAAGGTAATTGCCG TACAACTGAATAAAGCATACCTCTTCTGGTGCTGAATATCTGCACAGCGCTGCAGCAACTTCAT CAGGGTTTCCTTGAGCTATAGCACGGCGACCTGCAACAGCTCCAACCGAACCGTGGGGCTCCTG CAACACCTCAGAGTTCCCTTCCACAGTTGAAGCATGATTAACAGGCTGATCCCCAGGTTCTTCT GTGGATGGTTCAACAAGAAAACCAAGTGCTGCCTGTTGCTCACGCATCCTTTCATAGAATCTCA CAGATAACAAAGGATCTGATGAAGGTGCATTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007790* 						
					
						PMCS
						0.258709072

Conservation Information
Conserved circRNAs	osi_circ_007790*
PMCS	0.258709072

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23222574-23221497(+)
23222617-23222622(-)
						
						Potential amino acid sequence
						
							MVQQENQVLPVAHASFHRISQITKDLMKVHSFMTSRVRSFPFCTRSVIFFPLAGISPPGFNSEL
R*(+)
MREQQAALGFLVEPSTEEPGDQPVNHASTVEGNSEVLQEPHGSVGAVAGRRAIAQGNPDEVAAA
LCRYSAPEEVDTLPSTCGACGTECVTRFFATKIPYFREVIVMATTCDMCGYRNSELKPGGEIPA
KGKKITLRVQNGKDLTRDVIKECTFIRSFVICEIL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23222574-23221497(+) 23222617-23222622(-)
Potential amino acid sequence	MVQQENQVLPVAHASFHRISQITKDLMKVHSFMTSRVRSFPFCTRSVIFFPLAGISPPGFNSEL R(+) MREQQAALGFLVEPSTEEPGDQPVNHASTVEGNSEVLQEPHGSVGAVAGRRAIAQGNPDEVAAA LCRYSAPEEVDTLPSTCGACGTECVTRFFATKIPYFREVIVMATTCDMCGYRNSELKPGGEIPA KGKKITLRVQNGKDLTRDVIKECTFIRSFVICEIL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0471900_circ_g.3

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