Plant Circular RNA Database

Detail information of Os01g0654500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os01g0654500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_002964
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 26533970-26535715  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0654500						
					
						Parent gene annotation
						
							Similar to NADP-isocitrate dehydrogenase. (Os01t0654500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0654500_circ_g.3 Os01g0654500_circ_g.4 Os01g0654500_circ_g.6 Os01g0654500_circ_g.7 Os01g0654500_circ_g.8 Os01g0654500_circ_g.9 Os01g0654500_circ_g.10 Os01g0654500_circ_g.11 Os01g0654500_circ_g.12 Os01g0654500_circ_g.13 Os01g0654500_circ_g.14 Os01g0654500_circ_g.15 Os01g0654500_circ_g.16 Os01g0654500_circ_g.17 Os01g0654500_circ_g.18 Os01g0654500_circ_g.19 						
					
						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
						Os01t0654500-01:10

General Information
CircRNA Name	Os01g0654500_circ_g.5
ID in PlantcircBase	osa_circ_002964
Alias	NA
Organism	Oryza sativa
Position	chr1: 26533970-26535715 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0654500
Parent gene annotation	Similar to NADP-isocitrate dehydrogenase. (Os01t0654500-01)
Parent gene strand	-
Alternative splicing	Os01g0654500_circ_g.3 Os01g0654500_circ_g.4 Os01g0654500_circ_g.6 Os01g0654500_circ_g.7 Os01g0654500_circ_g.8 Os01g0654500_circ_g.9 Os01g0654500_circ_g.10 Os01g0654500_circ_g.11 Os01g0654500_circ_g.12 Os01g0654500_circ_g.13 Os01g0654500_circ_g.14 Os01g0654500_circ_g.15 Os01g0654500_circ_g.16 Os01g0654500_circ_g.17 Os01g0654500_circ_g.18 Os01g0654500_circ_g.19
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	Os01t0654500-01:10

			
						 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  
						
							TCAAATGAAGAATATATCTTTTTAGCTGCATAAGATAAAAGGCCACTTAATATATCTTTTACCT
GGAGTAATCGTCGCACACTTAATAGCCACATTGTACctgtgtgcaagtcctctggtccaagcaa
agattgaagcaatgctgtttgtgctggtttcacctcccttctggtgaacacggaaatgacgggt
aaccgtgc

									
								

					

						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
						
							CTGTGTGCAAGTCCTCTGGTCCAAGCAAAGATTGAAGCAATGCTGTTTGTGCTGGTTTCACCTC
CCTTCTGGTGAACACGGAAATGACGGGTAACCGTGCCATGGGCAGCTTCAGCTTCAATTGTTTT
TCCATCAGGGCACACCTACATATTAAACAAAGTAGTGTCATATATATTAGGCAGGGTTCAACCA
AAATTAAGGCTTTCCACTGTACAGAAGACAACACCCTAAAACAATATATTTAATATTTAGTCAT
GAACAATAAAGTAGAAGTAATATACATAGTTACATACCAATACTGATGTCATCAAACCCAATGA
ACCAAAGCCTGCACATTTATAGATCCAGTGAATTATTTAACAGTCAGCATCGTTTATCATGCAA
CTAGGAAAAAGGATAACATTTTTTGCCCATGAAATTCATGGTTCAGAAGTTAGCATATTCGTAC
CTTGAGCTAAGAAATCACTCTGCACATCTCCATCGTAATTCTTGCAAGCCCACACATAGCCCCC
TTCACTCTTAAGTGCATAAGCAACCATGTCATCGATGAGACGATGCTCATACCTACCAGAAGTC
AAGATCATGACACATGTGAGAAAAGCTTCTCAGAGAATTTTAAACAACAAAACAAGTTACCTAC
CATATTCCGGCAGCCTCAAACTTGGATTTCCACCCAGCTTCATAGACCTCCTGGAAAATATCCT
TGAACCTGCATCATCAAAAAAATATTACACCAGTTATATATGTCACCTGAAAAGATTAGTCAGA
TACACAATCATAGCCTGGATACATAAACCAAGATTTGAATAAATAGTAGGTGCAAATGTGCAAA
AATGTACTACCTTCCATCATATTTCTTCAGGATTGTGTTTTTGGTGCTAAGATAAAGCGGCCAT
TTCTTCTCATAAGCAGTTGTCATAGAAGCTTCAGCAAAAGCTCGGATTGACTATAAAACAGTTA
CAGGAATGGTCAGAAAAATACATTACTTTTCAACTAAAGAAAACTAAATATGGAGTTTACAGCA
CCTCATCAGTGTTGTACATAGACAAAGCAACTCCTCCAGCACCAGTGAAGTTGAACACCTCCAG
ATCAATCTGCTCATCCTTTCCCTCTGTAAGAACAGACAGATATAACGAGATCAAATTTTACTCA
TATCAGTTCAGTGAAGAACAAATAATAAAGTGTAGCCAAGCAACCATACCAAAAACCAGCTTGA
GCTTGCCAGGCCCCTTCAGAACTGCATCAGTTGCTCGGTACTGATCACCAAAAGCATGCCTTCC
AATGCAAATGGGCTTAGTCCATCCTGGTTTCATCAATGGTTCAATGTTACAGATGAACTTAGTT
CATTCAATAAAGAATAGATTCATATCCTCTTAAATACCTGGAACAAGCCTTGGGACATTTTTGC
ATATAATTGGCTCTCTGAATACAGTGCCTGAAAGGTAAAACGAAAGCGAAATGTCAAAGGTAAC
AAGAAAGGGAAATGTCAACAGCCAATTTCTGTGTGTTATATCAAACTAATGGTACCAGCATACC
ATTGATAATATTCCTAATTGTGCCATTGGGGCTCTTCCACATTTGCTTTAGGTTGAACTCCTTA
ACCCGAGCCTCATCTGGAATAGTGTTGAAATAGAAAGAGATAAGAGTCAAATGAAGAATATATC
TTTTTAGCTGCATAAGATAAAAGGCCACTTAATATATCTTTTACCTGGAGTAATCGTCGCACAC
TTAATAGCCACATTGTAC
						
					

			
		

Sequences
Splice junction sequence	TCAAATGAAGAATATATCTTTTTAGCTGCATAAGATAAAAGGCCACTTAATATATCTTTTACCT GGAGTAATCGTCGCACACTTAATAGCCACATTGTACctgtgtgcaagtcctctggtccaagcaa agattgaagcaatgctgtttgtgctggtttcacctcccttctggtgaacacggaaatgacgggt aaccgtgc
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	CTGTGTGCAAGTCCTCTGGTCCAAGCAAAGATTGAAGCAATGCTGTTTGTGCTGGTTTCACCTC CCTTCTGGTGAACACGGAAATGACGGGTAACCGTGCCATGGGCAGCTTCAGCTTCAATTGTTTT TCCATCAGGGCACACCTACATATTAAACAAAGTAGTGTCATATATATTAGGCAGGGTTCAACCA AAATTAAGGCTTTCCACTGTACAGAAGACAACACCCTAAAACAATATATTTAATATTTAGTCAT GAACAATAAAGTAGAAGTAATATACATAGTTACATACCAATACTGATGTCATCAAACCCAATGA ACCAAAGCCTGCACATTTATAGATCCAGTGAATTATTTAACAGTCAGCATCGTTTATCATGCAA CTAGGAAAAAGGATAACATTTTTTGCCCATGAAATTCATGGTTCAGAAGTTAGCATATTCGTAC CTTGAGCTAAGAAATCACTCTGCACATCTCCATCGTAATTCTTGCAAGCCCACACATAGCCCCC TTCACTCTTAAGTGCATAAGCAACCATGTCATCGATGAGACGATGCTCATACCTACCAGAAGTC AAGATCATGACACATGTGAGAAAAGCTTCTCAGAGAATTTTAAACAACAAAACAAGTTACCTAC CATATTCCGGCAGCCTCAAACTTGGATTTCCACCCAGCTTCATAGACCTCCTGGAAAATATCCT TGAACCTGCATCATCAAAAAAATATTACACCAGTTATATATGTCACCTGAAAAGATTAGTCAGA TACACAATCATAGCCTGGATACATAAACCAAGATTTGAATAAATAGTAGGTGCAAATGTGCAAA AATGTACTACCTTCCATCATATTTCTTCAGGATTGTGTTTTTGGTGCTAAGATAAAGCGGCCAT TTCTTCTCATAAGCAGTTGTCATAGAAGCTTCAGCAAAAGCTCGGATTGACTATAAAACAGTTA CAGGAATGGTCAGAAAAATACATTACTTTTCAACTAAAGAAAACTAAATATGGAGTTTACAGCA CCTCATCAGTGTTGTACATAGACAAAGCAACTCCTCCAGCACCAGTGAAGTTGAACACCTCCAG ATCAATCTGCTCATCCTTTCCCTCTGTAAGAACAGACAGATATAACGAGATCAAATTTTACTCA TATCAGTTCAGTGAAGAACAAATAATAAAGTGTAGCCAAGCAACCATACCAAAAACCAGCTTGA GCTTGCCAGGCCCCTTCAGAACTGCATCAGTTGCTCGGTACTGATCACCAAAAGCATGCCTTCC AATGCAAATGGGCTTAGTCCATCCTGGTTTCATCAATGGTTCAATGTTACAGATGAACTTAGTT CATTCAATAAAGAATAGATTCATATCCTCTTAAATACCTGGAACAAGCCTTGGGACATTTTTGC ATATAATTGGCTCTCTGAATACAGTGCCTGAAAGGTAAAACGAAAGCGAAATGTCAAAGGTAAC AAGAAAGGGAAATGTCAACAGCCAATTTCTGTGTGTTATATCAAACTAATGGTACCAGCATACC ATTGATAATATTCCTAATTGTGCCATTGGGGCTCTTCCACATTTGCTTTAGGTTGAACTCCTTA ACCCGAGCCTCATCTGGAATAGTGTTGAAATAGAAAGAGATAAGAGTCAAATGAAGAATATATC TTTTTAGCTGCATAAGATAAAAGGCCACTTAATATATCTTTTACCTGGAGTAATCGTCGCACAC TTAATAGCCACATTGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.206043051

Conservation Information
Conserved circRNAs	NA
PMCS	0.206043051

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							26535252-26534041(+)
26535549-26533972(-)
26534104-26535555(-)
						
					

						Potential amino acid sequence
						
							MQMGLVHPGTSLGTFLHIIGSLNTVPLIIFLIVPLGLFHICFRLNSLTRASSGVIVAHLIATLY
LCASPLVQAKIEAMLFVLVSPPFW*(+)
MWKSPNGTIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKL
VFEGKDEQIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYD
GRFKDIFQEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQG
FGSLGLMTSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNSIASIFAWTRGLAHRYNVAI
KCATITPDEARVKEFNLKQMWKSPNGTIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAF
GDQYRATDAVLKGPGKLKLVFEGKDEQIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAY
EKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGY
VWACKNYDGDVQSDFLAQGFGSLGLMTSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNS
IASIFAWTRGLAHRYNVAIKCATITPDEARVKEFNLKQMWKSPNGTIRNIINGTVFREPIICKN
VPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKLVFEGKDEQIDLEVFNFTGAGGVALSM
YNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAGWKSKFEAAGIWY
EHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQGFGSLGLMTSVLVCPDGKTIEAEAAHG
TVTRHFRVHQKGGETSTNSIASIFAWTRGLAHRYNVAIKCATITPDEARVKEFNLKQMWKSPNG
TIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKLVFEGKDE
QIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYDGRFKDIF
QEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQGFGSLGLM
TSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNSIASIFAWTRGLAH(-)
MEKQLKLKLPMARLPVISVFTRREVKPAQTALLQSLLGPEDLHTGTMWLLSVRRLLQMRLGLRS
ST*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	26535252-26534041(+) 26535549-26533972(-) 26534104-26535555(-)
Potential amino acid sequence	MQMGLVHPGTSLGTFLHIIGSLNTVPLIIFLIVPLGLFHICFRLNSLTRASSGVIVAHLIATLY LCASPLVQAKIEAMLFVLVSPPFW(+) MWKSPNGTIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKL VFEGKDEQIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYD GRFKDIFQEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQG FGSLGLMTSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNSIASIFAWTRGLAHRYNVAI KCATITPDEARVKEFNLKQMWKSPNGTIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAF GDQYRATDAVLKGPGKLKLVFEGKDEQIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAY EKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGY VWACKNYDGDVQSDFLAQGFGSLGLMTSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNS IASIFAWTRGLAHRYNVAIKCATITPDEARVKEFNLKQMWKSPNGTIRNIINGTVFREPIICKN VPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKLVFEGKDEQIDLEVFNFTGAGGVALSM YNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYDGRFKDIFQEVYEAGWKSKFEAAGIWY EHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQGFGSLGLMTSVLVCPDGKTIEAEAAHG TVTRHFRVHQKGGETSTNSIASIFAWTRGLAHRYNVAIKCATITPDEARVKEFNLKQMWKSPNG TIRNIINGTVFREPIICKNVPRLVPGWTKPICIGRHAFGDQYRATDAVLKGPGKLKLVFEGKDE QIDLEVFNFTGAGGVALSMYNTDESIRAFAEASMTTAYEKKWPLYLSTKNTILKKYDGRFKDIF QEVYEAGWKSKFEAAGIWYEHRLIDDMVAYALKSEGGYVWACKNYDGDVQSDFLAQGFGSLGLM TSVLVCPDGKTIEAEAAHGTVTRHFRVHQKGGETSTNSIASIFAWTRGLAH(-) MEKQLKLKLPMARLPVISVFTRREVKPAQTALLQSLLGPEDLHTGTMWLLSVRRLLQMRLGLRS ST(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0654500_circ_g.5

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