Plant Circular RNA Database

Detail information of Os02g0197950_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0197950_circ_g.3
					
						ID in PlantcircBase
						osa_circ_013665
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 5484478-5488499  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0197950						
					
						Parent gene annotation
						
							Hypothetical protein. (Os02t0197950-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0197950_circ_g.1 Os02g0197950_circ_g.2 Os02g0197950_circ_g.4 						
					
						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
						Os02t0197900-01:12
Os02t0197900-02:10
Os02t0197950-00:11
Os02t0197900-01:12
Os02t0197900-02:10

General Information
CircRNA Name	Os02g0197950_circ_g.3
ID in PlantcircBase	osa_circ_013665
Alias	NA
Organism	Oryza sativa
Position	chr2: 5484478-5488499 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0197950
Parent gene annotation	Hypothetical protein. (Os02t0197950-00)
Parent gene strand	-
Alternative splicing	Os02g0197950_circ_g.1 Os02g0197950_circ_g.2 Os02g0197950_circ_g.4
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	Os02t0197900-01:12 Os02t0197900-02:10 Os02t0197950-00:11 Os02t0197900-01:12 Os02t0197900-02:10

			
						 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  
						
							CTCATGTACAAGCTCTAACAGAGAAAGTTGGGGTAGATGTTCCTCTTTAGGGGGAGCTAGTGAC
GACTCATTCCCTGGCGATATTAGTGATAAGCAAGAGgtcagagtataatccagatcagtattta
tgggagacggagtttatccttgctgggcgcaagtacaaacgactagacttggaggcaagtaagg
gaaccaat

									
								

					

						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
						
							GTCAGAGTATAATCCAGATCAGTATTTATGGGAGACGGAGTTTATCCTTGCTGGGCGCAAGTAC
AAACGACTAGACTTGGAGGCAAGTAAGGGAACCAATTGTCGAGGTTTTTTTCTTTAATTCATTT
ACTGGGAGAAGTTTGACTGCAATTATGGACATCTTTGTTGATAGCCTTATTCTGCCTTTACCAG
CTTACGAATGCAAGAGGCCTTACAATAAAATGCAGCCACTATGTTCCTGCTTTCATTCCAGAGA
ATACTTCTCTTCCATGTGTGATTTACTGCCATGGAAATAGGTATTTACCTTGTGTGCTCAGTGC
TAGCATATTAGTCTGAGTCGTGTTTTCTTTAACATTCAGATTAGTGTATTTTGATATATTAATA
TGTGCTCCTAAGCCTTTGGAAACCAAATTAATATTAAGTTAGTAGCACACGTTATGAGCTAGCA
TTTCCTCTTAACTGATGAGATTCATCTCAAGCAATCACCGATATCTTTTGGAATCTTTAACAGG
CTTTTGCTTTGACTCAATGCAGTGGATGCCGGGCAGATGCAAATGAAGCTGCTGTTATACTGCT
TCCTGCAAATATCACTGTTTTTACACTTGATTTTTCCGGGTCAGGTCTATCAGGTGGAGATTAT
GTAAGCCTTGGTTGGCATGAGGTATATAATCAGTATCACTTTTGTTCTTCTACATTTATATCAT
GGATAATTACATTATTCTGAAATTTTCTAGAAAGAGGACCTAAAATGTGTGGTGTCATACCTAC
GGACCACTAAGCAAGTTTCCTGTATAGGCCTTTGGGGGCGATCGATGGGTGCTGTTACAAGGTA
CCTTTTAGTTTGGATATACTGCATGCTCCTTTTACTTGGTGGTGGAGATTTATTTATTTCACTT
CACGTGACTTGATTGATATGTTACACCAAACAGAGATCAACATTGAACAAAATTATCTGTACTT
AAGTGGCCTCTGATTCTCCCGTTTTGCTCTTTGATAATGTGCTTTAGAAGGTTTTTAGGCTTTG
AGTTCATGTCATGTATAAGATGTCTTAAATATGTGATCTTTGCGTAACGGATCCATCCCAATTC
ATTCGTTGTTTTGTGAACTAATGTAATACAGCCTACTCTATGGAGCAGAAGATTCCTCGATTGC
TGGAATGGTATTGGATAGTGCTTTCACTAACTTATATGGCTTGATGATGGAGCTTGTGGATGTC
TACAAAATCCGGGTTCCTAAATTCACGGTATGCACATATTCTGTATAAAGTTGCTTTTGTTCCA
TAACAAAATGACATGGAATGCTGCAATATTGCATTGGCATAATTTGTAGGGTATCATGGCTTAT
AATAGCTATGATTCTTTCTTGTTTCTTTTTGGGAAATCAGATTGTTCTATTGTGGCTTAATAGC
TCAATATTTGCCCATCGAAACCATGGTTTTACTATTCAGCACTCAGTCACTTAGCTCTTAGTTG
CAATTGTTATTTTTTGAGCAATTATTCAACCAGGCTAAGTTAGTAATTACTTCATCAGGTTAGG
AGTGTAAAAGGGCTTTGAGTTATGTGATTGAACACCATTCAGTTGCTTCAACTTAAAATGCATT
TATATCCCATTTTTAAGCAGAGAAACTACCTAACTTACTGCCAATGTTATTTGATTTCTACTTT
CATTGGTTTGCCTGCACCCCCATAATTACCAATTTACATAGTTTCCTTTGATGTGATGCAAGAA
ATAAACATGCAAATAAAGCTCCATTCTCTTGATGGAATTGCAAACGACTACACACAACTTAAAT
TCATCTTCTGGTTGCAAATAACTATGATAACTTATCTGGTAGCTCTATCTTATTCTGTTATTGG
ATATGAATTTTAATTTTAGCACACCCTTATTAAAATTACTTCTTCCTTCGTATTCAGCTTTCAC
TTCTAATGTTGTGAAGCGTAGCATCGTTGTATGTTCTTACTAACATAAGCTCCTTTCTAACCTT
AGTGAGCATTGCTGTATTTGCATTGTTTTAATCATTTTTTTTCTGAAATTCGTCGTTTCAGGTT
AAGATGGCTGTTCAGTATATGAGAAAGATCATTCAGAAGAGAGCTAAGTTTGACATAATGGATC
TTAATGTTTTACAGGTTTACTTTCTGTATCAATATCTCGCAATCATAGTATTGTAGAAGTTAAC
ACAATGTAATCTTTTTTGTTACTGAATAAACATGTAGACGCATAAGCTCATGGAGTACCATAAA
GACTATTTCAGACTACATTTTGCAATTATTCACTGCCATTGGTTATATTTCATATTAAATAACA
CTATGGACATGATAAATGATATTATCAAATACTCCCTCCATCCCAAAGTATAGTAGCAACCTAG
TATACGATTAGGCTTATCCAGATTTGTAGTACTAGGTGGTGCCTAATCATGTACTAGTATTTGG
GGATGGAGGGAGTAATTAGTTTTCTGCAGAGCCTGGCTGATTATGCTGGGTGTTATATGTAATT
GCCTCCATCCCAAAAAGACCTTATTGTGCATAGCAAGAAATGAAGTCTTTCTGGGAAGGAGGTA
GTAATACTTAGAAATCCTCTATTAGTGAACTGTTGATTATTGAACTTTGCGATCTGAAGTGCTC
TTAGTTGCAGTAATTTTAAATGCTTGCTCGCTCCTACAATTGTGGCTGACTTTGTGTTCTCTTG
TTCTTAAACAGTTCGCTCCCAAGACGTTTATTCCTGCATTGTTTGGTCATGCTTCAAATGACAT
GTTCATTCAGCCTCACCACTGTGATCGTATTCACCAGGCGTATGGGGTAATGCATAATGTAGTT
TGTTTTATTAATGCCACTCAAAATCAAATAAATAATACATAAATCGCTAATTGACTGTTCCTGG
CTTCCTGCTGAAGAATACATTATTATTTGTTTAAAATTAAATCATGTTTATTGTACAGGGGGAT
AAAAGTATAATAAAATTTGAGGGTGATCACAACTCCCCAAGACCTCAATCATATTATGATTCAG
TTTCAATGTTCTTCTATAATACTTTGCATCCTCCTCAATTGCCTGTGAAATGCTCCAATAATCT
AGGTGCTTTCAAAGTTGGCACGGTGACCAATGAGGTAAAGCTTCATAAAATACGTTACAAAACT
TAATTTGGAACCACTATTGTTCTTATGAAGTACTTTGAGTGAAAACAAATATTTGCTTTTGGGT
GGTCCTCCAGAGTTTCATTTTTGAGATCATTAGTGGTCTACGAGGAGCTGGAACCAATTCATGC
AGTTCATCAATAGATGCATCGAAATTTCCAAATGGTGTGTTACGTTCCGCTCTTTTGCTTCCTT
GTAGTTGAATTGTATAACAAGGCGCTATTCACTAACTGTATCTCTTTATTTCAGCTACAACACC
AGTAGTTGAATTGCTGTCAGAGAGTGTGAATCAGCTGTCCATTAAGAATGACAGTGACTTGGTA
GGATTGCTAATGATACGTTCGTGCATGATATGCAATACCCTTTCCTGACTGTTCGATTAAATGC
AGGATTTTCTTTTAGACGAGAATCGCACCCTCTCAGAAATTGATGGTGATAGTGCTGGGTCACG
CTTGCAGGTGAAGTATATAAATTGGTTAAGCAGAAATTAATCACTGTATTTTGTAGTGAAGCTC
AACATTATCTCCATATGAGTAATTGAGGTCACTGTAAGAAATTGTGGCAATTGTAGCACAACTA
TGGTTTGCTTAGTACTTAGTAGGGTCATTGAAACCAATGGTCAGTTCCATTCATCATGATTGAT
TACCCGGTGGACAACAATTGTATATAATTGTCAACAGACAGGAAAAACGCTTCGATATTCCTGT
ACCTGTAAGTTGTGTGATGAGTGATGACAATATGTCTGCTTTTCTTATAGGACAAATCAAGTGG
GCACAATGAGGAATCCTGCTCATGTACAAGCTCTAACAGAGAAAGTTGGGGTAGATGTTCCTCT
TTAGGGGGAGCTAGTGACGACTCATTCCCTGGCGATATTAGTGATAAGCAAGAG
						
					

			
		

Sequences
Splice junction sequence	CTCATGTACAAGCTCTAACAGAGAAAGTTGGGGTAGATGTTCCTCTTTAGGGGGAGCTAGTGAC GACTCATTCCCTGGCGATATTAGTGATAAGCAAGAGgtcagagtataatccagatcagtattta tgggagacggagtttatccttgctgggcgcaagtacaaacgactagacttggaggcaagtaagg gaaccaat
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	GTCAGAGTATAATCCAGATCAGTATTTATGGGAGACGGAGTTTATCCTTGCTGGGCGCAAGTAC AAACGACTAGACTTGGAGGCAAGTAAGGGAACCAATTGTCGAGGTTTTTTTCTTTAATTCATTT ACTGGGAGAAGTTTGACTGCAATTATGGACATCTTTGTTGATAGCCTTATTCTGCCTTTACCAG CTTACGAATGCAAGAGGCCTTACAATAAAATGCAGCCACTATGTTCCTGCTTTCATTCCAGAGA ATACTTCTCTTCCATGTGTGATTTACTGCCATGGAAATAGGTATTTACCTTGTGTGCTCAGTGC TAGCATATTAGTCTGAGTCGTGTTTTCTTTAACATTCAGATTAGTGTATTTTGATATATTAATA TGTGCTCCTAAGCCTTTGGAAACCAAATTAATATTAAGTTAGTAGCACACGTTATGAGCTAGCA TTTCCTCTTAACTGATGAGATTCATCTCAAGCAATCACCGATATCTTTTGGAATCTTTAACAGG CTTTTGCTTTGACTCAATGCAGTGGATGCCGGGCAGATGCAAATGAAGCTGCTGTTATACTGCT TCCTGCAAATATCACTGTTTTTACACTTGATTTTTCCGGGTCAGGTCTATCAGGTGGAGATTAT GTAAGCCTTGGTTGGCATGAGGTATATAATCAGTATCACTTTTGTTCTTCTACATTTATATCAT GGATAATTACATTATTCTGAAATTTTCTAGAAAGAGGACCTAAAATGTGTGGTGTCATACCTAC GGACCACTAAGCAAGTTTCCTGTATAGGCCTTTGGGGGCGATCGATGGGTGCTGTTACAAGGTA CCTTTTAGTTTGGATATACTGCATGCTCCTTTTACTTGGTGGTGGAGATTTATTTATTTCACTT CACGTGACTTGATTGATATGTTACACCAAACAGAGATCAACATTGAACAAAATTATCTGTACTT AAGTGGCCTCTGATTCTCCCGTTTTGCTCTTTGATAATGTGCTTTAGAAGGTTTTTAGGCTTTG AGTTCATGTCATGTATAAGATGTCTTAAATATGTGATCTTTGCGTAACGGATCCATCCCAATTC ATTCGTTGTTTTGTGAACTAATGTAATACAGCCTACTCTATGGAGCAGAAGATTCCTCGATTGC TGGAATGGTATTGGATAGTGCTTTCACTAACTTATATGGCTTGATGATGGAGCTTGTGGATGTC TACAAAATCCGGGTTCCTAAATTCACGGTATGCACATATTCTGTATAAAGTTGCTTTTGTTCCA TAACAAAATGACATGGAATGCTGCAATATTGCATTGGCATAATTTGTAGGGTATCATGGCTTAT AATAGCTATGATTCTTTCTTGTTTCTTTTTGGGAAATCAGATTGTTCTATTGTGGCTTAATAGC TCAATATTTGCCCATCGAAACCATGGTTTTACTATTCAGCACTCAGTCACTTAGCTCTTAGTTG CAATTGTTATTTTTTGAGCAATTATTCAACCAGGCTAAGTTAGTAATTACTTCATCAGGTTAGG AGTGTAAAAGGGCTTTGAGTTATGTGATTGAACACCATTCAGTTGCTTCAACTTAAAATGCATT TATATCCCATTTTTAAGCAGAGAAACTACCTAACTTACTGCCAATGTTATTTGATTTCTACTTT CATTGGTTTGCCTGCACCCCCATAATTACCAATTTACATAGTTTCCTTTGATGTGATGCAAGAA ATAAACATGCAAATAAAGCTCCATTCTCTTGATGGAATTGCAAACGACTACACACAACTTAAAT TCATCTTCTGGTTGCAAATAACTATGATAACTTATCTGGTAGCTCTATCTTATTCTGTTATTGG ATATGAATTTTAATTTTAGCACACCCTTATTAAAATTACTTCTTCCTTCGTATTCAGCTTTCAC TTCTAATGTTGTGAAGCGTAGCATCGTTGTATGTTCTTACTAACATAAGCTCCTTTCTAACCTT AGTGAGCATTGCTGTATTTGCATTGTTTTAATCATTTTTTTTCTGAAATTCGTCGTTTCAGGTT AAGATGGCTGTTCAGTATATGAGAAAGATCATTCAGAAGAGAGCTAAGTTTGACATAATGGATC TTAATGTTTTACAGGTTTACTTTCTGTATCAATATCTCGCAATCATAGTATTGTAGAAGTTAAC ACAATGTAATCTTTTTTGTTACTGAATAAACATGTAGACGCATAAGCTCATGGAGTACCATAAA GACTATTTCAGACTACATTTTGCAATTATTCACTGCCATTGGTTATATTTCATATTAAATAACA CTATGGACATGATAAATGATATTATCAAATACTCCCTCCATCCCAAAGTATAGTAGCAACCTAG TATACGATTAGGCTTATCCAGATTTGTAGTACTAGGTGGTGCCTAATCATGTACTAGTATTTGG GGATGGAGGGAGTAATTAGTTTTCTGCAGAGCCTGGCTGATTATGCTGGGTGTTATATGTAATT GCCTCCATCCCAAAAAGACCTTATTGTGCATAGCAAGAAATGAAGTCTTTCTGGGAAGGAGGTA GTAATACTTAGAAATCCTCTATTAGTGAACTGTTGATTATTGAACTTTGCGATCTGAAGTGCTC TTAGTTGCAGTAATTTTAAATGCTTGCTCGCTCCTACAATTGTGGCTGACTTTGTGTTCTCTTG TTCTTAAACAGTTCGCTCCCAAGACGTTTATTCCTGCATTGTTTGGTCATGCTTCAAATGACAT GTTCATTCAGCCTCACCACTGTGATCGTATTCACCAGGCGTATGGGGTAATGCATAATGTAGTT TGTTTTATTAATGCCACTCAAAATCAAATAAATAATACATAAATCGCTAATTGACTGTTCCTGG CTTCCTGCTGAAGAATACATTATTATTTGTTTAAAATTAAATCATGTTTATTGTACAGGGGGAT AAAAGTATAATAAAATTTGAGGGTGATCACAACTCCCCAAGACCTCAATCATATTATGATTCAG TTTCAATGTTCTTCTATAATACTTTGCATCCTCCTCAATTGCCTGTGAAATGCTCCAATAATCT AGGTGCTTTCAAAGTTGGCACGGTGACCAATGAGGTAAAGCTTCATAAAATACGTTACAAAACT TAATTTGGAACCACTATTGTTCTTATGAAGTACTTTGAGTGAAAACAAATATTTGCTTTTGGGT GGTCCTCCAGAGTTTCATTTTTGAGATCATTAGTGGTCTACGAGGAGCTGGAACCAATTCATGC AGTTCATCAATAGATGCATCGAAATTTCCAAATGGTGTGTTACGTTCCGCTCTTTTGCTTCCTT GTAGTTGAATTGTATAACAAGGCGCTATTCACTAACTGTATCTCTTTATTTCAGCTACAACACC AGTAGTTGAATTGCTGTCAGAGAGTGTGAATCAGCTGTCCATTAAGAATGACAGTGACTTGGTA GGATTGCTAATGATACGTTCGTGCATGATATGCAATACCCTTTCCTGACTGTTCGATTAAATGC AGGATTTTCTTTTAGACGAGAATCGCACCCTCTCAGAAATTGATGGTGATAGTGCTGGGTCACG CTTGCAGGTGAAGTATATAAATTGGTTAAGCAGAAATTAATCACTGTATTTTGTAGTGAAGCTC AACATTATCTCCATATGAGTAATTGAGGTCACTGTAAGAAATTGTGGCAATTGTAGCACAACTA TGGTTTGCTTAGTACTTAGTAGGGTCATTGAAACCAATGGTCAGTTCCATTCATCATGATTGAT TACCCGGTGGACAACAATTGTATATAATTGTCAACAGACAGGAAAAACGCTTCGATATTCCTGT ACCTGTAAGTTGTGTGATGAGTGATGACAATATGTCTGCTTTTCTTATAGGACAAATCAAGTGG GCACAATGAGGAATCCTGCTCATGTACAAGCTCTAACAGAGAAAGTTGGGGTAGATGTTCCTCT TTAGGGGGAGCTAGTGACGACTCATTCCCTGGCGATATTAGTGATAAGCAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.11792379

Conservation Information
Conserved circRNAs	NA
PMCS	0.11792379

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5485291-5484486(+)
						
						Potential amino acid sequence
						
							MGAVTSLLYGAEDSSIAGMVLDSAFTNLYGLMMELVDVYKIRVPKFTVKMAVQYMRKIIQKRAK
FDIMDLNVLQFAPKTFIPALFGHASNDMFIQPHHCDRIHQAYGGDKSIIKFEGDHNSPRPQSYY
DSVSMFFYNTLHPPQLPVKCSNNLGAFKVGTVTNESFIFEIISGLRGAGTNSCSSSIDASKFPN
ATTPVVELLSESVNQLSIKNDSDLDFLLDENRTLSEIDGDSAGSRLQDKSSGHNEESCSCTSSN
RESWGRCSSLGGASDDSFPGDISDKQEVRV*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5485291-5484486(+)
Potential amino acid sequence	MGAVTSLLYGAEDSSIAGMVLDSAFTNLYGLMMELVDVYKIRVPKFTVKMAVQYMRKIIQKRAK FDIMDLNVLQFAPKTFIPALFGHASNDMFIQPHHCDRIHQAYGGDKSIIKFEGDHNSPRPQSYY DSVSMFFYNTLHPPQLPVKCSNNLGAFKVGTVTNESFIFEIISGLRGAGTNSCSSSIDASKFPN ATTPVVELLSESVNQLSIKNDSDLDFLLDENRTLSEIDGDSAGSRLQDKSSGHNEESCSCTSSN RESWGRCSSLGGASDDSFPGDISDKQEVRV*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0197950_circ_g.3

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