Plant Circular RNA Database

Detail information of Os02g0709800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0709800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_016200
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29376347-29378515  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0709800						
					
						Parent gene annotation
						
							GTPase-activating protein, Regulation of vesicle trafficking fro
m trans-Golgi network to plasma membrane or central vacuole (Os0
2t0709800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0709800_circ_g.1 Os02g0709800_circ_g.2 Os02g0709800_circ_g.4 Os02g0709800_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os02t0709800-01:4

General Information
CircRNA Name	Os02g0709800_circ_g.3
ID in PlantcircBase	osa_circ_016200
Alias	NA
Organism	Oryza sativa
Position	chr2: 29376347-29378515 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0709800
Parent gene annotation	GTPase-activating protein, Regulation of vesicle trafficking fro m trans-Golgi network to plasma membrane or central vacuole (Os0 2t0709800-01)
Parent gene strand	-
Alternative splicing	Os02g0709800_circ_g.1 Os02g0709800_circ_g.2 Os02g0709800_circ_g.4 Os02g0709800_circ_g.5
Support reads	1
Tissues	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	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	Os02t0709800-01:4

			
						 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  
						
							TGGCTTCATCAACTGAACTAGTGAAACTGAGTGAGTTCTGTCGTGACATGGCATTTGCTACGGT
GGCAACACCAGGAAGCTCCAGTGATGACAAACTTTTcttccactgggattttatggcttcatat
tctgttcttttcatgacagcaagatattccctctcggcatatgttgaatcgtattcatgatacc
ccaacagg

									
								

					

						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
						
							CTTCCACTGGGATTTTATGGCTTCATATTCTGTTCTTTTCATGACAGCAAGATATTCCCTCTCG
GCATATGTTGAATCGTATTCATGATACCCCAACAGGAATTTCCAGACCTACATATTAAACATCA
AAACTCATGTACAAGAATGCCTTGTTGAGTGGTTATAGCAAATCAAAGTTAAGTATAAAACCTC
TTTTCTCAGAACATGGTCAATCCCTCCATAGAAAACCTTTTTCCTCAGCGCCTTCGAATCCATA
ACTCTACCTTCAGGATCTAAGAAGGATCTCCACTGTGCAATAAAAATTTCAGACAAACATAAGA
CGTTTCTGAGAGGAACAGTGGTACAACATGATCAATACATGATAATTATTAGATGGTTGGTGGA
GAAGATCCATGAAACTAAAGACATTATGTGCAGCGTAAACTCATACAGTTCTTAATTAATGTAA
AATGCCAGACTAAATCTTAGCCTTCCGTTGAGTTGAAGAAAAAGGTCAAACTACCATTTGGTAA
AACAAATCTTTTCACTAATGGAAGTGTGTGCAGCACAATATTTCATGTGTGTATCCAGCACAAT
GCTCCTCTGCTTGACATGATCAGATAACTAGATGTTTACTGGATAAAAGGAATAATTTTCCATG
TAACTATCCCTTTCAATCTATTTATACCTCCAGAAAACAAGTTGTTAGTATCAAATATACAGTA
TCTGCTAAAGGCTAATTCTCCTGCCAGGAGAAGCATGGCTTGCAAATTATGAGGCAACAGTTCC
TGAGTTCCACTAAAATCCTGCAGGATTTCTTAGCTTGCTTGAAGCCCCAAGGCATATGCCTAGA
GTCTGAGCCAAAGACATAATGACTCCAAGAAACAAGAGGTTTAAATATCAAAGGTCACAAGATT
GAACAGAAGTATGACTGTCTTGAGGATCATAATACTTTACTGTGATAGTAAATACATCCGAAAT
CAAATGTTGAACTCATCCAATTGTATGTTAGAGGTTAGACAACTGATGTATCTTGTGGATTGAG
TTACAGATCTAGTAATTATTTGAACTGCAACGCTAAGCAGAATAATAGCACATGGAATTTTAGC
ACCATAGAGCACTTGAACATAAGGGGACAGATATGTAAAATAAGTGCTCAGAGAATTCAATACC
TCATCAACACTCAACGGTTGTTCTCTTGGTTTTCCCCACGCTAGAATTTTATTAGACTGCCAAG
ATCAAGGAAACTGATGTTACACACATTGCAGTATGCAAAATTGTAATAGCTTTGGACAGTACCA
GGGGTCAGAAGAAAAAAACTGACTATTTTTTATTTAAAAAATCTTTTTTTTTAAGTTTTCCAAC
TAAAGTGACAACAAATATGTGCTAAATAATACATAGAAGATACATCTAATACTACCTCTAGTAA
TAGAAAGGAAGTTGGCAGATAATGGTTTTGAACATGAGCAGATGACAGAAGATAATACTAGTTT
AGCTTAGGTTTCTTCTCATTACAGATGGCCTTAATCCTAATTGTGAATATGAAATTGTATTTTA
GTTTTACTCTCTCTGTATGTATTACTTATTCTTTTATATATATCGCAGGTGCATCCCCTACTGT
TTTCAGACAAAAAAAATTAGAATAAAAATGAATTAACCATAACAGTAAAATTTAAAGGCTTGTC
TCCATGACTTGTGAGTGCTTCAAAAAGTTGTTCTGTTGTTGCTCTCTTCCAAAATTTGTAGTGG
ACGAATAACAAAGAACAATAGAAAAAAAGATATGGTTACCTCCATTGAATCTGACAGCAAAGAA
TCCTTATCTGGTGTTATTTGCTGATCTTTGTACTTATCATTTGCTCTGTTGTCCAAAACATATT
CTTGCTGCTGCCTTCCATAAGTATGACCACCACTACTGTGGTTTTCCCGAAAAAGACTTGACGT
GGTATCTCGTGCAAACTTTGTAACCAGAGAAAATTTCTCCAGTACTTGGATAGAAAGATCACGA
CCCGGATCATTCGATCTGTGCTTTTGCTTTGAGACATATTCAGTCATGCTAGAAGATGCCCCAT
GTTTGGCATCACTCCCATGTCTGGCTTCATCAACTGAACTAGTGAAACTGAGTGAGTTCTGTCG
TGACATGGCATTTGCTACGGTGGCAACACCAGGAAGCTCCAGTGATGACAAACTTTT
						
					

			
		

Sequences
Splice junction sequence	TGGCTTCATCAACTGAACTAGTGAAACTGAGTGAGTTCTGTCGTGACATGGCATTTGCTACGGT GGCAACACCAGGAAGCTCCAGTGATGACAAACTTTTcttccactgggattttatggcttcatat tctgttcttttcatgacagcaagatattccctctcggcatatgttgaatcgtattcatgatacc ccaacagg
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	CTTCCACTGGGATTTTATGGCTTCATATTCTGTTCTTTTCATGACAGCAAGATATTCCCTCTCG GCATATGTTGAATCGTATTCATGATACCCCAACAGGAATTTCCAGACCTACATATTAAACATCA AAACTCATGTACAAGAATGCCTTGTTGAGTGGTTATAGCAAATCAAAGTTAAGTATAAAACCTC TTTTCTCAGAACATGGTCAATCCCTCCATAGAAAACCTTTTTCCTCAGCGCCTTCGAATCCATA ACTCTACCTTCAGGATCTAAGAAGGATCTCCACTGTGCAATAAAAATTTCAGACAAACATAAGA CGTTTCTGAGAGGAACAGTGGTACAACATGATCAATACATGATAATTATTAGATGGTTGGTGGA GAAGATCCATGAAACTAAAGACATTATGTGCAGCGTAAACTCATACAGTTCTTAATTAATGTAA AATGCCAGACTAAATCTTAGCCTTCCGTTGAGTTGAAGAAAAAGGTCAAACTACCATTTGGTAA AACAAATCTTTTCACTAATGGAAGTGTGTGCAGCACAATATTTCATGTGTGTATCCAGCACAAT GCTCCTCTGCTTGACATGATCAGATAACTAGATGTTTACTGGATAAAAGGAATAATTTTCCATG TAACTATCCCTTTCAATCTATTTATACCTCCAGAAAACAAGTTGTTAGTATCAAATATACAGTA TCTGCTAAAGGCTAATTCTCCTGCCAGGAGAAGCATGGCTTGCAAATTATGAGGCAACAGTTCC TGAGTTCCACTAAAATCCTGCAGGATTTCTTAGCTTGCTTGAAGCCCCAAGGCATATGCCTAGA GTCTGAGCCAAAGACATAATGACTCCAAGAAACAAGAGGTTTAAATATCAAAGGTCACAAGATT GAACAGAAGTATGACTGTCTTGAGGATCATAATACTTTACTGTGATAGTAAATACATCCGAAAT CAAATGTTGAACTCATCCAATTGTATGTTAGAGGTTAGACAACTGATGTATCTTGTGGATTGAG TTACAGATCTAGTAATTATTTGAACTGCAACGCTAAGCAGAATAATAGCACATGGAATTTTAGC ACCATAGAGCACTTGAACATAAGGGGACAGATATGTAAAATAAGTGCTCAGAGAATTCAATACC TCATCAACACTCAACGGTTGTTCTCTTGGTTTTCCCCACGCTAGAATTTTATTAGACTGCCAAG ATCAAGGAAACTGATGTTACACACATTGCAGTATGCAAAATTGTAATAGCTTTGGACAGTACCA GGGGTCAGAAGAAAAAAACTGACTATTTTTTATTTAAAAAATCTTTTTTTTTAAGTTTTCCAAC TAAAGTGACAACAAATATGTGCTAAATAATACATAGAAGATACATCTAATACTACCTCTAGTAA TAGAAAGGAAGTTGGCAGATAATGGTTTTGAACATGAGCAGATGACAGAAGATAATACTAGTTT AGCTTAGGTTTCTTCTCATTACAGATGGCCTTAATCCTAATTGTGAATATGAAATTGTATTTTA GTTTTACTCTCTCTGTATGTATTACTTATTCTTTTATATATATCGCAGGTGCATCCCCTACTGT TTTCAGACAAAAAAAATTAGAATAAAAATGAATTAACCATAACAGTAAAATTTAAAGGCTTGTC TCCATGACTTGTGAGTGCTTCAAAAAGTTGTTCTGTTGTTGCTCTCTTCCAAAATTTGTAGTGG ACGAATAACAAAGAACAATAGAAAAAAAGATATGGTTACCTCCATTGAATCTGACAGCAAAGAA TCCTTATCTGGTGTTATTTGCTGATCTTTGTACTTATCATTTGCTCTGTTGTCCAAAACATATT CTTGCTGCTGCCTTCCATAAGTATGACCACCACTACTGTGGTTTTCCCGAAAAAGACTTGACGT GGTATCTCGTGCAAACTTTGTAACCAGAGAAAATTTCTCCAGTACTTGGATAGAAAGATCACGA CCCGGATCATTCGATCTGTGCTTTTGCTTTGAGACATATTCAGTCATGCTAGAAGATGCCCCAT GTTTGGCATCACTCCCATGTCTGGCTTCATCAACTGAACTAGTGAAACTGAGTGAGTTCTGTCG TGACATGGCATTTGCTACGGTGGCAACACCAGGAAGCTCCAGTGATGACAAACTTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.226173659

Conservation Information
Conserved circRNAs	NA
PMCS	0.226173659

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29378377-29376431(+)
29378466-29376349(-)
						
						Potential amino acid sequence
						
							MLEDAPCLASLPCLASSTELVKLSEFCRDMAFATVATPGSSSDDKLFFHWDFMASYSVLFMTAR
YSLSAYVESYS*(+)
MSRQNSLSFTSSVDEARHGSDAKHGASSSMTEYVSKQKHRSNDPGRDLSIQVLEKFSLVTKFAR
DTTSSLFRENHSSGGHTYGRQQQEYVLDNRANDKYKDQQITPDKDSLLSDSMESNKILAWGKPR
EQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGGIDHVLRKEVWKFLLGYHEYDSTYAEREYLAV
MKRTEYEAIKSQWKKSLSSLELPGVATVANAMSRQNSLSFTSSVDEARHGSDAKHGASSSMTEY
VSKQKHRSNDPGRDLSIQVLEKFSLVTKFARDTTSSLFRENHSSGGHTYGRQQQEYVLDNRAND
KYKDQQITPDKDSLLSDSMESNKILAWGKPREQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGG
IDHVLRKEVWKFLLGYHEYDSTYAEREYLAVMKRTEYEAIKSQWKKSLSSLELPGVATVANAMS
RQNSLSFTSSVDEARHGSDAKHGASSSMTEYVSKQKHRSNDPGRDLSIQVLEKFSLVTKFARDT
TSSLFRENHSSGGHTYGRQQQEYVLDNRANDKYKDQQITPDKDSLLSDSMESNKILAWGKPREQ
PLSVDEWRSFLDPEGRVMDSKALRKKVFYGGIDHVLRKEVWKFLLGYHEYDSTYAEREYLAVMK
RTEYEAIKSQWKKSLSSLELPGVATVANAMSRQNSLSFTSSVDEARHGSDAKHGASSSMTEYVS
KQKHRSNDPGRDLSIQVLEKFSLVTKFARDTTSSLFRENHSSGGHTYGRQQQEYVLDNRANDKY
KDQQITPDKDSLLSDSMESNKILAWGKPREQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGGID
HVLRKEVWKFLLGYHEYDSTYAEREYLAVMKRTEYEAIKSQWK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29378377-29376431(+) 29378466-29376349(-)
Potential amino acid sequence	MLEDAPCLASLPCLASSTELVKLSEFCRDMAFATVATPGSSSDDKLFFHWDFMASYSVLFMTAR YSLSAYVESYS*(+) MSRQNSLSFTSSVDEARHGSDAKHGASSSMTEYVSKQKHRSNDPGRDLSIQVLEKFSLVTKFAR DTTSSLFRENHSSGGHTYGRQQQEYVLDNRANDKYKDQQITPDKDSLLSDSMESNKILAWGKPR EQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGGIDHVLRKEVWKFLLGYHEYDSTYAEREYLAV MKRTEYEAIKSQWKKSLSSLELPGVATVANAMSRQNSLSFTSSVDEARHGSDAKHGASSSMTEY VSKQKHRSNDPGRDLSIQVLEKFSLVTKFARDTTSSLFRENHSSGGHTYGRQQQEYVLDNRAND KYKDQQITPDKDSLLSDSMESNKILAWGKPREQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGG IDHVLRKEVWKFLLGYHEYDSTYAEREYLAVMKRTEYEAIKSQWKKSLSSLELPGVATVANAMS RQNSLSFTSSVDEARHGSDAKHGASSSMTEYVSKQKHRSNDPGRDLSIQVLEKFSLVTKFARDT TSSLFRENHSSGGHTYGRQQQEYVLDNRANDKYKDQQITPDKDSLLSDSMESNKILAWGKPREQ PLSVDEWRSFLDPEGRVMDSKALRKKVFYGGIDHVLRKEVWKFLLGYHEYDSTYAEREYLAVMK RTEYEAIKSQWKKSLSSLELPGVATVANAMSRQNSLSFTSSVDEARHGSDAKHGASSSMTEYVS KQKHRSNDPGRDLSIQVLEKFSLVTKFARDTTSSLFRENHSSGGHTYGRQQQEYVLDNRANDKY KDQQITPDKDSLLSDSMESNKILAWGKPREQPLSVDEWRSFLDPEGRVMDSKALRKKVFYGGID HVLRKEVWKFLLGYHEYDSTYAEREYLAVMKRTEYEAIKSQWK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0709800_circ_g.3

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