Plant Circular RNA Database

Detail information of Os06g0318700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0318700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_030678
					
						Alias
						Os_ciR10329
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 12353913-12355213  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0318700						
					
						Parent gene annotation
						
							Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os06
t0318700-01);Non-protein coding transcript. (Os06t0318700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os06t0318650-00:3
Os06t0318700-01:3
Os06t0318650-00:3

General Information
CircRNA Name	Os06g0318700_circ_g.2
ID in PlantcircBase	osa_circ_030678
Alias	Os_ciR10329
Organism	Oryza sativa
Position	chr6: 12353913-12355213 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0318700
Parent gene annotation	Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os06 t0318700-01);Non-protein coding transcript. (Os06t0318700-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
Tissues	root/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	Os06t0318650-00:3 Os06t0318700-01:3 Os06t0318650-00:3

			
						 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  
						
							TGAATATTCGAGGAATGTTTACTATTGCAGGTCTATTGACTGCAAGTACTTCGATTTTGGAACT
GGTACTTGTCCCTTTGGGTCAAGCTGTTTCTACAAGggttctttgcaagttcttcatgcatgga
gcttgcttgaaaggagagtactgtgagttctcccatgattggaatgatcaaccaaacaatgtaa
tgtattag

									
								

					

						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: 970
Transcript exons: 12353913-12354000,12354099-12354910,12355144-12355213
GGTTCTTTGCAAGTTCTTCATGCATGGAGCTTGCTTGAAAGGAGAGTACTGTGAGTTCTCCCAT
GATTGGAATGATCAACCAAACAATGTTTGCACGTTCTACCAGAAAGGTTCATGCTCGTATGGTA
GCCGTTGCCGATATGACCATGTCAAAGTTTCTCGTAACCCCACAGTGGCTCCACCACCAAGCTC
AAGTACTACAACACGTGCATCTAGTTCTCTTCAGCCTTTGAGTTTCGGGCGCCCTCACCATGTG
GGGTACCAAGCAGATTCAAGCAACCCAAGGCAACAGATATCTATGGATGTGCTGGCACATTCTG
GAAGTAAGCCTGTATGGAGAAATGATTTTCAACATGAAAGTGTACTTGAGGATGGGATTGACTG
GTCAATAAGTCCAACTGTGCAAAACCAGACAACCTTGAGTCCTGCTGATCTGCCAATCTGTTCT
TTTGCTGCTGGTGGTAATTGTCCTTATGGGGAAGAGTGCCCTCAGATGCATGGAGATCTGTGCA
CAACCTGTGGGAAAATGTGCTTACATCCTTATCGTCCTGATGAGAGGGAGGAACATACCAAGCT
ATGTGAGAAAAACCACAAGCGTCTTGAGTCTTTGAAACGTAGCCAAGAGATAGAATGCAGTGTC
TGCCTGGACCGTGTGCTCTCAAAGCCTACTGCTGCTGAAAGGAAGTTTGGACTCTTATCTGAGT
GTGATCATCCCTTCTGTATTTCATGTATTAGAAATTGGCGTAACAATTCTCCTACGTCTGGAAT
GGATGTGAACTCAGCACTGAGGGCTTGTCCAATATGTCGCAAACTTTCATACTATGTCATTCCA
AGTGTTCTTTGGTACTTTTCGAAGGAGGAAAAGCTGGAGATTATTGACAACTATAAAGCCAAAC
TCAAGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTTGGGTCAAGCTG
TTTCTACAAG
						
					

						Genomic sequence
						
							GGTTCTTTGCAAGTTCTTCATGCATGGAGCTTGCTTGAAAGGAGAGTACTGTGAGTTCTCCCAT
GATTGGAATGATCAACCAAACAATGTAATGTATTAGTAAATGATTGATGTGCTCTGATTTCATT
GCCATACTTAACAGTGCAAATCTTCTACTGTTCCTTACTTTGATTCTTACTTGCTCAGGTTTGC
ACGTTCTACCAGAAAGGTTCATGCTCGTATGGTAGCCGTTGCCGATATGACCATGTCAAAGTTT
CTCGTAACCCCACAGTGGCTCCACCACCAAGCTCAAGTACTACAACACGTGCATCTAGTTCTCT
TCAGCCTTTGAGTTTCGGGCGCCCTCACCATGTGGGGTACCAAGCAGATTCAAGCAACCCAAGG
CAACAGATATCTATGGATGTGCTGGCACATTCTGGAAGTAAGCCTGTATGGAGAAATGATTTTC
AACATGAAAGTGTACTTGAGGATGGGATTGACTGGTCAATAAGTCCAACTGTGCAAAACCAGAC
AACCTTGAGTCCTGCTGATCTGCCAATCTGTTCTTTTGCTGCTGGTGGTAATTGTCCTTATGGG
GAAGAGTGCCCTCAGATGCATGGAGATCTGTGCACAACCTGTGGGAAAATGTGCTTACATCCTT
ATCGTCCTGATGAGAGGGAGGAACATACCAAGCTATGTGAGAAAAACCACAAGCGTCTTGAGTC
TTTGAAACGTAGCCAAGAGATAGAATGCAGTGTCTGCCTGGACCGTGTGCTCTCAAAGCCTACT
GCTGCTGAAAGGAAGTTTGGACTCTTATCTGAGTGTGATCATCCCTTCTGTATTTCATGTATTA
GAAATTGGCGTAACAATTCTCCTACGTCTGGAATGGATGTGAACTCAGCACTGAGGGCTTGTCC
AATATGTCGCAAACTTTCATACTATGTCATTCCAAGTGTTCTTTGGTACTTTTCGAAGGAGGAA
AAGCTGGAGATTATTGACAACTATAAAGCCAAACTCAAGTAAGTTTGACAATTTTTATATCATT
TTTTTCTGTGGCATGTTCTCTTATGTGCAAGATTGTTGGCATATTCTTTATAATTTATTGAATG
AGCATAGTCATCAATTTATTTGAAAATGACATTTCTTATGCATGCCCTTTTCTGAAATATCCAA
GCTGATATATTTCGTGAGGAGTGATTTATGTTTAATACTATTATGTCCCTGAATATTCGAGGAA
TGTTTACTATTGCAGGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTT
GGGTCAAGCTGTTTCTACAAG
						
					

			
		

Sequences
Splice junction sequence	TGAATATTCGAGGAATGTTTACTATTGCAGGTCTATTGACTGCAAGTACTTCGATTTTGGAACT GGTACTTGTCCCTTTGGGTCAAGCTGTTTCTACAAGggttctttgcaagttcttcatgcatgga gcttgcttgaaaggagagtactgtgagttctcccatgattggaatgatcaaccaaacaatgtaa tgtattag
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: 970 Transcript exons: 12353913-12354000,12354099-12354910,12355144-12355213 GGTTCTTTGCAAGTTCTTCATGCATGGAGCTTGCTTGAAAGGAGAGTACTGTGAGTTCTCCCAT GATTGGAATGATCAACCAAACAATGTTTGCACGTTCTACCAGAAAGGTTCATGCTCGTATGGTA GCCGTTGCCGATATGACCATGTCAAAGTTTCTCGTAACCCCACAGTGGCTCCACCACCAAGCTC AAGTACTACAACACGTGCATCTAGTTCTCTTCAGCCTTTGAGTTTCGGGCGCCCTCACCATGTG GGGTACCAAGCAGATTCAAGCAACCCAAGGCAACAGATATCTATGGATGTGCTGGCACATTCTG GAAGTAAGCCTGTATGGAGAAATGATTTTCAACATGAAAGTGTACTTGAGGATGGGATTGACTG GTCAATAAGTCCAACTGTGCAAAACCAGACAACCTTGAGTCCTGCTGATCTGCCAATCTGTTCT TTTGCTGCTGGTGGTAATTGTCCTTATGGGGAAGAGTGCCCTCAGATGCATGGAGATCTGTGCA CAACCTGTGGGAAAATGTGCTTACATCCTTATCGTCCTGATGAGAGGGAGGAACATACCAAGCT ATGTGAGAAAAACCACAAGCGTCTTGAGTCTTTGAAACGTAGCCAAGAGATAGAATGCAGTGTC TGCCTGGACCGTGTGCTCTCAAAGCCTACTGCTGCTGAAAGGAAGTTTGGACTCTTATCTGAGT GTGATCATCCCTTCTGTATTTCATGTATTAGAAATTGGCGTAACAATTCTCCTACGTCTGGAAT GGATGTGAACTCAGCACTGAGGGCTTGTCCAATATGTCGCAAACTTTCATACTATGTCATTCCA AGTGTTCTTTGGTACTTTTCGAAGGAGGAAAAGCTGGAGATTATTGACAACTATAAAGCCAAAC TCAAGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTTGGGTCAAGCTG TTTCTACAAG
Genomic sequence	GGTTCTTTGCAAGTTCTTCATGCATGGAGCTTGCTTGAAAGGAGAGTACTGTGAGTTCTCCCAT GATTGGAATGATCAACCAAACAATGTAATGTATTAGTAAATGATTGATGTGCTCTGATTTCATT GCCATACTTAACAGTGCAAATCTTCTACTGTTCCTTACTTTGATTCTTACTTGCTCAGGTTTGC ACGTTCTACCAGAAAGGTTCATGCTCGTATGGTAGCCGTTGCCGATATGACCATGTCAAAGTTT CTCGTAACCCCACAGTGGCTCCACCACCAAGCTCAAGTACTACAACACGTGCATCTAGTTCTCT TCAGCCTTTGAGTTTCGGGCGCCCTCACCATGTGGGGTACCAAGCAGATTCAAGCAACCCAAGG CAACAGATATCTATGGATGTGCTGGCACATTCTGGAAGTAAGCCTGTATGGAGAAATGATTTTC AACATGAAAGTGTACTTGAGGATGGGATTGACTGGTCAATAAGTCCAACTGTGCAAAACCAGAC AACCTTGAGTCCTGCTGATCTGCCAATCTGTTCTTTTGCTGCTGGTGGTAATTGTCCTTATGGG GAAGAGTGCCCTCAGATGCATGGAGATCTGTGCACAACCTGTGGGAAAATGTGCTTACATCCTT ATCGTCCTGATGAGAGGGAGGAACATACCAAGCTATGTGAGAAAAACCACAAGCGTCTTGAGTC TTTGAAACGTAGCCAAGAGATAGAATGCAGTGTCTGCCTGGACCGTGTGCTCTCAAAGCCTACT GCTGCTGAAAGGAAGTTTGGACTCTTATCTGAGTGTGATCATCCCTTCTGTATTTCATGTATTA GAAATTGGCGTAACAATTCTCCTACGTCTGGAATGGATGTGAACTCAGCACTGAGGGCTTGTCC AATATGTCGCAAACTTTCATACTATGTCATTCCAAGTGTTCTTTGGTACTTTTCGAAGGAGGAA AAGCTGGAGATTATTGACAACTATAAAGCCAAACTCAAGTAAGTTTGACAATTTTTATATCATT TTTTTCTGTGGCATGTTCTCTTATGTGCAAGATTGTTGGCATATTCTTTATAATTTATTGAATG AGCATAGTCATCAATTTATTTGAAAATGACATTTCTTATGCATGCCCTTTTCTGAAATATCCAA GCTGATATATTTCGTGAGGAGTGATTTATGTTTAATACTATTATGTCCCTGAATATTCGAGGAA TGTTTACTATTGCAGGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTT GGGTCAAGCTGTTTCTACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016127 zma_circ_009929* 						
					
						PMCS
						0.471619434

Conservation Information
Conserved circRNAs	osi_circ_016127 zma_circ_009929*
PMCS	0.471619434

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12353933-12353963(+)
12354833-12353963(+)
12353978-12355148(-)
						
						Potential amino acid sequence
						
							MHGACLKGEYCEFSHDWNDQPNNVCTFYQKGSCSYGSRCRYDHVKVSRNPTVAPPPSSSTTTRA
SSSLQPLSFGRPHHVGYQADSSNPRQQISMDVLAHSGSKPVWRNDFQHESVLEDGIDWSISPTV
QNQTTLSPADLPICSFAAGGNCPYGEECPQMHGDLCTTCGKMCLHPYRPDEREEHTKLCEKNHK
RLESLKRSQEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRNWRNNSPTSGMDVNSAL
RACPICRKLSYYVIPSVLWYFSKEEKLEIIDNYKAKLKSIDCKYFDFGTGTCPFGSSCFYKGSL
QVLHAWSLLERRVL*(+)
MSFQVFFGTFRRRKSWRLLTTIKPNSSLLTASTSILELVLVPLGQAVSTRVLCKFFMHGACLKG
EYCEFSHDWNDQPNNVCTFYQKGSCSYGSRCRYDHVKVSRNPTVAPPPSSSTTTRASSSLQPLS
FGRPHHVGYQADSSNPRQQISMDVLAHSGSKPVWRNDFQHESVLEDGIDWSISPTVQNQTTLSP
ADLPICSFAAGGNCPYGEECPQMHGDLCTTCGKMCLHPYRPDEREEHTKLCEKNHKRLESLKRS
QEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRNWRNNSPTSGMDVNSALRACPICRK
LSYYVIPSVLWYFSKEEKLEIIDNYKAKLKSIDCKYFDFGTGTCPFGSSCFYKGSLQVLHAWSL
LERRVL*(+)
MGELTVLSFQASSMHEELAKNPCRNSLTQRDKYQFQNRSTCSQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12353933-12353963(+) 12354833-12353963(+) 12353978-12355148(-)
Potential amino acid sequence	MHGACLKGEYCEFSHDWNDQPNNVCTFYQKGSCSYGSRCRYDHVKVSRNPTVAPPPSSSTTTRA SSSLQPLSFGRPHHVGYQADSSNPRQQISMDVLAHSGSKPVWRNDFQHESVLEDGIDWSISPTV QNQTTLSPADLPICSFAAGGNCPYGEECPQMHGDLCTTCGKMCLHPYRPDEREEHTKLCEKNHK RLESLKRSQEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRNWRNNSPTSGMDVNSAL RACPICRKLSYYVIPSVLWYFSKEEKLEIIDNYKAKLKSIDCKYFDFGTGTCPFGSSCFYKGSL QVLHAWSLLERRVL(+) MSFQVFFGTFRRRKSWRLLTTIKPNSSLLTASTSILELVLVPLGQAVSTRVLCKFFMHGACLKG EYCEFSHDWNDQPNNVCTFYQKGSCSYGSRCRYDHVKVSRNPTVAPPPSSSTTTRASSSLQPLS FGRPHHVGYQADSSNPRQQISMDVLAHSGSKPVWRNDFQHESVLEDGIDWSISPTVQNQTTLSP ADLPICSFAAGGNCPYGEECPQMHGDLCTTCGKMCLHPYRPDEREEHTKLCEKNHKRLESLKRS QEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRNWRNNSPTSGMDVNSALRACPICRK LSYYVIPSVLWYFSKEEKLEIIDNYKAKLKSIDCKYFDFGTGTCPFGSSCFYKGSLQVLHAWSL LERRVL(+) MGELTVLSFQASSMHEELAKNPCRNSLTQRDKYQFQNRSTCSQ*(-)
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 Os06g0318700_circ_g.2

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