Plant Circular RNA Database

Detail information of Os02g0297600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0297600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_014355
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 11400373-11402777  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0297600						
					
						Parent gene annotation
						
							Protein of unknown function DUF707 family protein. (Os02t0297600
-01);Protein of unknown function DUF707 family protein. (Os02t02
97600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0297600_circ_g.1 Os02g0297600_circ_g.2 Os02g0297600_circ_g.4 Os02g0297600_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot, 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
						Os02t0297600-01:11
Os02t0297600-02:11

General Information
CircRNA Name	Os02g0297600_circ_g.3
ID in PlantcircBase	osa_circ_014355
Alias	NA
Organism	Oryza sativa
Position	chr2: 11400373-11402777 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0297600
Parent gene annotation	Protein of unknown function DUF707 family protein. (Os02t0297600 -01);Protein of unknown function DUF707 family protein. (Os02t02 97600-02)
Parent gene strand	+
Alternative splicing	Os02g0297600_circ_g.1 Os02g0297600_circ_g.2 Os02g0297600_circ_g.4 Os02g0297600_circ_g.5
Support reads	1
Tissues	shoot, 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	Os02t0297600-01:11 Os02t0297600-02:11

			
						 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  
						
							TAACATTGTTTATAACAGTGGTATTCTTACACACTGTCTTCTGCAGAATGACTTGGTCCATGGA
TGGGGTCTTGATTTCGCTCTAAGGAAATGTGTGGAGctgcagctctacaggtttcttcggcagc
aactgtagtagaaaagaaagaggggaagattcgcagttcatatggcaaaacctgctaatagcat
tggccgta

									
								

					

						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
						
							CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG
TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGGTAGGTTTGATACTGCAGCTACTGTTT
ATTCTTAACTGTTTCTTTTCCGTTTCTAGCGCTGATTGATAATTTATCTGTTGCCCACTTGTCT
AGTAACACCAACCAAGTGTTCTTTTTCTTTCTACGGTGCTCATGGTTGCACATTGTAATTTAAT
TGTGAACATTCATCATCAACAGCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGC
AGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATAACCAAG
GTGAAGTAGATCGTTTGCTTCTCTTGTTTTTTCTCATCATGTATTTTGTTTAGGAAAATAATCT
TTACTTTCTACATTACTGCATTTCGCAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAA
GATAGGAACTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTC
ATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAGGTACGTTCACATCAATACTT
CTAATACTTTTTAAGGTTGTTTGTATTAGTTGAGTTGGGCAATATTCTAGTTGGGTTGGGGACT
ACATTTTGATATGTGGGGTCTGTTAATACCACTCCTGTGTTTCTCATGCATAATGTGTGAAGTT
CTAGGCTGAAAGATTACATGAAGGACGATATCAGGGTTTTCTGTCTATATTAAAAGTTTTCTGT
TGCATCTTATAAAATTATGATAATCGATGATTGAATCTTGAATTGTCGATATTAGTGTACTACA
AGGGACTCTTCTCAACTAGTAATTAACTGAAAAGTAGTTGGTTACTGGTCATAGACCACATTTC
CTATTGTTTATTTTGTTTTAAAGTCACATGCAATTCTTTCTGCAGATTTATGTTCCCACAAACC
CTAAAGGTGCTGAAAGGCTCCCACCAGGCATTGTTGTTTCTGAAACAGATCTTTTTCCACGGAG
ATTGTGGGGTGATCCTAGTGAGGTTTGTGGTTTCTTTTGTTGTAACTTTGCTCAGTAGGGCATT
GAATTAGATGGTTTCTATATCATTTTTCTTCTATGATATACAATCTGAAACATATGGTCGTACT
GTCAGGACCTGAGTAGCGAACCACGGTACCTTGTTACTTTTACAGTTGGAATTACACAGAAGGC
TAATATTGATGCTGCTGTCAAAAAGGTAACTGAGACGGACATCTTGCATTGCTTAAATTTGGTG
CATCAATCAACTATACCCTGTAACAGATAAACAGTTAATCTTGCATTCCGGTGAACTGGTAGTC
ACTTTTTCTTAATGTAAATATGCAATTATTGCTTCTGAATTCATAGAAGCTTTTCATATAGTTT
TCAGATAAATTCACTATCATGCTATTCCATTATGATGGCCGGACTACTGAATGGGATGAATTTG
AGTGGTCTAAAAGAGCTATCCATGTGAGTGTCAGGAAGCAGACTAAGTGGTAGGTAAAGGTTAT
TGTTATTATTAATATGTTATCTGTGCTGAATCCATTTGAATTTTTGCTGTGAAGTCTTAATACT
GTATGTACTTGTTGTTTTACCTAAGGTGGTATGCAAAGCGGTTTTTGCATCCTGATGTTGTTGC
CCGATATGACTACATATTCATCTGGGATGAGGACCTAGGTGTTGAGCATTTCAATGCAGAGAAG
TAAGAACTGCATTTTTGTTCCTTTATCTGTTGACCTTGTGTTCCACTTGGGTGCGATTATGTTT
GTACTCTTTTTCAGGTATATTGAACTTGTTAGGAAGCATGGGCTAGATATCTCTCAGCCTGGTT
TGCAACCTGACAAGGGACTGACATGGCAAATGACAAAACGGCGAGGTGATCAAGAAGTTCACAA
GTGAGCCGCTGAATCCATATGGTTTTATTCAATGATTAATCGTTGGCCACCTATATAAGATTCT
TGAGTAACTTTTTTCTTCAACAGAGTTACTGAGGAGAGGCCAGGCTGGTGCACTGATCCCCATC
TGCCACCATGTGCAGCGTAAGGGGCTAAGGGCCCAGAATTTTATTGTGTATTTAAATTTCTTTG
CCCAAATATCTGTATTACATTCAATTTGATGTGCAGATTTGTTGAAATCATGGCAACCGTGTTC
TCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGGTGGAGTGGCACTACATGTTCAACT
TTAACATTGTTTATAACAGTGGTATTCTTACACACTGTCTTCTGCAGAATGACTTGGTCCATGG
ATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTGGAG
						
					

			
		

Sequences
Splice junction sequence	TAACATTGTTTATAACAGTGGTATTCTTACACACTGTCTTCTGCAGAATGACTTGGTCCATGGA TGGGGTCTTGATTTCGCTCTAAGGAAATGTGTGGAGctgcagctctacaggtttcttcggcagc aactgtagtagaaaagaaagaggggaagattcgcagttcatatggcaaaacctgctaatagcat tggccgta
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	CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGGTAGGTTTGATACTGCAGCTACTGTTT ATTCTTAACTGTTTCTTTTCCGTTTCTAGCGCTGATTGATAATTTATCTGTTGCCCACTTGTCT AGTAACACCAACCAAGTGTTCTTTTTCTTTCTACGGTGCTCATGGTTGCACATTGTAATTTAAT TGTGAACATTCATCATCAACAGCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGC AGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATAACCAAG GTGAAGTAGATCGTTTGCTTCTCTTGTTTTTTCTCATCATGTATTTTGTTTAGGAAAATAATCT TTACTTTCTACATTACTGCATTTCGCAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAA GATAGGAACTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTC ATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAGGTACGTTCACATCAATACTT CTAATACTTTTTAAGGTTGTTTGTATTAGTTGAGTTGGGCAATATTCTAGTTGGGTTGGGGACT ACATTTTGATATGTGGGGTCTGTTAATACCACTCCTGTGTTTCTCATGCATAATGTGTGAAGTT CTAGGCTGAAAGATTACATGAAGGACGATATCAGGGTTTTCTGTCTATATTAAAAGTTTTCTGT TGCATCTTATAAAATTATGATAATCGATGATTGAATCTTGAATTGTCGATATTAGTGTACTACA AGGGACTCTTCTCAACTAGTAATTAACTGAAAAGTAGTTGGTTACTGGTCATAGACCACATTTC CTATTGTTTATTTTGTTTTAAAGTCACATGCAATTCTTTCTGCAGATTTATGTTCCCACAAACC CTAAAGGTGCTGAAAGGCTCCCACCAGGCATTGTTGTTTCTGAAACAGATCTTTTTCCACGGAG ATTGTGGGGTGATCCTAGTGAGGTTTGTGGTTTCTTTTGTTGTAACTTTGCTCAGTAGGGCATT GAATTAGATGGTTTCTATATCATTTTTCTTCTATGATATACAATCTGAAACATATGGTCGTACT GTCAGGACCTGAGTAGCGAACCACGGTACCTTGTTACTTTTACAGTTGGAATTACACAGAAGGC TAATATTGATGCTGCTGTCAAAAAGGTAACTGAGACGGACATCTTGCATTGCTTAAATTTGGTG CATCAATCAACTATACCCTGTAACAGATAAACAGTTAATCTTGCATTCCGGTGAACTGGTAGTC ACTTTTTCTTAATGTAAATATGCAATTATTGCTTCTGAATTCATAGAAGCTTTTCATATAGTTT TCAGATAAATTCACTATCATGCTATTCCATTATGATGGCCGGACTACTGAATGGGATGAATTTG AGTGGTCTAAAAGAGCTATCCATGTGAGTGTCAGGAAGCAGACTAAGTGGTAGGTAAAGGTTAT TGTTATTATTAATATGTTATCTGTGCTGAATCCATTTGAATTTTTGCTGTGAAGTCTTAATACT GTATGTACTTGTTGTTTTACCTAAGGTGGTATGCAAAGCGGTTTTTGCATCCTGATGTTGTTGC CCGATATGACTACATATTCATCTGGGATGAGGACCTAGGTGTTGAGCATTTCAATGCAGAGAAG TAAGAACTGCATTTTTGTTCCTTTATCTGTTGACCTTGTGTTCCACTTGGGTGCGATTATGTTT GTACTCTTTTTCAGGTATATTGAACTTGTTAGGAAGCATGGGCTAGATATCTCTCAGCCTGGTT TGCAACCTGACAAGGGACTGACATGGCAAATGACAAAACGGCGAGGTGATCAAGAAGTTCACAA GTGAGCCGCTGAATCCATATGGTTTTATTCAATGATTAATCGTTGGCCACCTATATAAGATTCT TGAGTAACTTTTTTCTTCAACAGAGTTACTGAGGAGAGGCCAGGCTGGTGCACTGATCCCCATC TGCCACCATGTGCAGCGTAAGGGGCTAAGGGCCCAGAATTTTATTGTGTATTTAAATTTCTTTG CCCAAATATCTGTATTACATTCAATTTGATGTGCAGATTTGTTGAAATCATGGCAACCGTGTTC TCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGGTGGAGTGGCACTACATGTTCAACT TTAACATTGTTTATAACAGTGGTATTCTTACACACTGTCTTCTGCAGAATGACTTGGTCCATGG ATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.162380523

Conservation Information
Conserved circRNAs	NA
PMCS	0.162380523

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11400443-11400405(+)
11402769-11400455(+)
11400443-11402762(-)
						
						Potential amino acid sequence
						
							MAKPANSIGRSTPRSNEGMRLIFSAVVGVMLGYLFGVSFPTVNITKLHFPSSIISYIEDRNSGI
TTQTLLNHAWASANRHNKNNSDSTSEEVPKIYVPTNPKGAERLPPGIVVSETDLFPRRLWGDPS
EDLSSEPRYLVTFTVGITQKANIDAAVKKFSDKFTIMLFHYDGRTTEWDEFEWSKRAIHVSVRK
QTKWWYAKRFLHPDVVARYDYIFIWDEDLGVEHFNAEKYIELVRKHGLDISQPGLQPDKGLTWQ
MTKRRGDQEVHKVTEERPGWCTDPHLPPCAAFVEIMATVFSRDAWRCVWHMIQNDLVHGWGLDF
ALRKCVELQLYRFLRQQL*(+)
MCGAAALQVSSAATVVEKKEGKIRSSYGKTC*(+)
MNCESSPLSFLLQLLPKKPVELQLHTFP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11400443-11400405(+) 11402769-11400455(+) 11400443-11402762(-)
Potential amino acid sequence	MAKPANSIGRSTPRSNEGMRLIFSAVVGVMLGYLFGVSFPTVNITKLHFPSSIISYIEDRNSGI TTQTLLNHAWASANRHNKNNSDSTSEEVPKIYVPTNPKGAERLPPGIVVSETDLFPRRLWGDPS EDLSSEPRYLVTFTVGITQKANIDAAVKKFSDKFTIMLFHYDGRTTEWDEFEWSKRAIHVSVRK QTKWWYAKRFLHPDVVARYDYIFIWDEDLGVEHFNAEKYIELVRKHGLDISQPGLQPDKGLTWQ MTKRRGDQEVHKVTEERPGWCTDPHLPPCAAFVEIMATVFSRDAWRCVWHMIQNDLVHGWGLDF ALRKCVELQLYRFLRQQL(+) MCGAAALQVSSAATVVEKKEGKIRSSYGKTC(+) MNCESSPLSFLLQLLPKKPVELQLHTFP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0297600_circ_g.3

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