Plant Circular RNA Database

Detail information of Os01g0513900_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os01g0513900_circ_g.6
					
						ID in PlantcircBase
						osa_circ_001929
					
						Alias
						Os_ciR1463
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 18152219-18153178  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os01g0513900						
					
						Parent gene annotation
						
							Similar to Kinesin heavy chain (Fragment). (Os01t0513900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0513900_circ_g.1 Os01g0513900_circ_g.2 Os01g0513900_circ_g.3 Os01g0513900_circ_g.4 Os01g0513900_circ_g.5 Os01g0513900_circ_g.7 Os01g0513900_circ_g.8 Os01g0513900_circ_g.9 Os01g0513900_circ_g.10 Os01g0513900_circ_g.11 Os01g0513900_circ_g.12 Os01g0513900_circ_g.13 Os01g0513900_circ_g.14 Os01g0513900_circ_g.15 Os01g0513900_circ_g.16 Os01g0513900_circ_g.17 Os01g0513900_circ_g.18 						
					
						Support reads
						10/3
					
						Tissues
						root/shoot, root, seed
					
						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
						Os01t0513900-01:4

General Information
CircRNA Name	Os01g0513900_circ_g.6
ID in PlantcircBase	osa_circ_001929
Alias	Os_ciR1463
Organism	Oryza sativa
Position	chr1: 18152219-18153178 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os01g0513900
Parent gene annotation	Similar to Kinesin heavy chain (Fragment). (Os01t0513900-01)
Parent gene strand	+
Alternative splicing	Os01g0513900_circ_g.1 Os01g0513900_circ_g.2 Os01g0513900_circ_g.3 Os01g0513900_circ_g.4 Os01g0513900_circ_g.5 Os01g0513900_circ_g.7 Os01g0513900_circ_g.8 Os01g0513900_circ_g.9 Os01g0513900_circ_g.10 Os01g0513900_circ_g.11 Os01g0513900_circ_g.12 Os01g0513900_circ_g.13 Os01g0513900_circ_g.14 Os01g0513900_circ_g.15 Os01g0513900_circ_g.16 Os01g0513900_circ_g.17 Os01g0513900_circ_g.18
Support reads	10/3
Tissues	root/shoot, root, seed
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	Os01t0513900-01:4

			
						 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  
						
							CTTTATCATCAAGATATCTGCTATGGAAATTTACAATGAGATTGTGAAGGATCTTCTACGACCT
GAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAGcttcgtgagaaggctgggttcttgctgt
tttccccagacttcaaggaatctgcaatttactagcgaaaatgggtgtatcaagacctccaagc
acccctgc

									
								

					

						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: 620
Transcript exons: 18152219-18152533,18152688-18152777,18152863-18152963,18
153065-18153178
CTTCGTGAGAAGGCTGGGTTCTTGCTGTTTTCCCCAGACTTCAAGGAATCTGCAATTTACTAGC
GAAAATGGGTGTATCAAGACCTCCAAGCACCCCTGCATCAAAGATTGAGCGCACACCGATGTCG
ACCCCAACCCCTGGTGGCAGCACTAGGGTCAAGGAGGAGAAGATTTTTGTCACAGTGAGGGTGC
GACCATTGAGCAAGAAAGAACTGGCCTTGAAGGATCAGGTGGCATGGGAGTGCGATGATAACCA
GACAATTTTGTACAAGGGCCCCCCACAGGATCGGGCTGCACCCACCTCTTACACTTTCGACAAG
GTGTTTGGACCAGCTTCCCAGACAGAAGTGGTGTATGAAGAGGGAGCTAAGGATGTTGCTATGT
CTGCATTGACAGGCATTAATGCCACCATTTTTGCCTATGGTCAAACCAGCAGTGGTAAGACATT
CACCATGAGAGGCGTCACAGAGAGTGCTGTAAATGATATATACAGGCACATAGAAAATACTCCT
GAGAGGGACTTTATCATCAAGATATCTGCTATGGAAATTTACAATGAGATTGTGAAGGATCTTC
TACGACCTGAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAG
						
					

						Genomic sequence
						
							CTTCGTGAGAAGGCTGGGTTCTTGCTGTTTTCCCCAGACTTCAAGGAATCTGCAATTTACTAGC
GAAAATGGGTGTATCAAGACCTCCAAGCACCCCTGCATCAAAGATTGAGCGCACACCGATGTCG
ACCCCAACCCCTGGTGGCAGCACTAGGGTCAAGGAGGAGAAGATTTTTGTCACAGTGAGGGTGC
GACCATTGAGCAAGAAAGAACTGGCCTTGAAGGATCAGGTGGCATGGGAGTGCGATGATAACCA
GACAATTTTGTACAAGGGCCCCCCACAGGATCGGGCTGCACCCACCTCTTACACTTTCGGTAGG
CTTTTCAGTGATCTATTCATGACTGCATATCTCAAGCAATTATGTTTGTAGTGACACTCTTGAT
CAATGACTTCATATCTCAATCCTATAAGTTTGAAGTTACCTCAGTAGCTAAATTGACTAATTTA
AATTCCATCTTACCCTTCCAGACAAGGTGTTTGGACCAGCTTCCCAGACAGAAGTGGTGTATGA
AGAGGGAGCTAAGGATGTTGCTATGTCTGCATTGACAGGCATTAATGGTAAATTAATTCTCACT
CAGTAGTTTGAATAAAGTTGAATGATCCTTTATCTACTCTTTATTCTTTACCTTCCTTTGTTTT
GCAGCCACCATTTTTGCCTATGGTCAAACCAGCAGTGGTAAGACATTCACCATGAGAGGCGTCA
CAGAGAGTGCTGTAAATGATATATACAGGCACATAGAAAATGTGAGTTTTTTTATACATGGAGC
AACAAAATCATGCTATCTATATTGCTTTCTAAAATGCACATAACACATAATTGTTTCTTGCTTT
TGTTGATTGCATAGACTCCTGAGAGGGACTTTATCATCAAGATATCTGCTATGGAAATTTACAA
TGAGATTGTGAAGGATCTTCTACGACCTGAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAG
						
					

			
		

Sequences
Splice junction sequence	CTTTATCATCAAGATATCTGCTATGGAAATTTACAATGAGATTGTGAAGGATCTTCTACGACCT GAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAGcttcgtgagaaggctgggttcttgctgt tttccccagacttcaaggaatctgcaatttactagcgaaaatgggtgtatcaagacctccaagc acccctgc
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: 620 Transcript exons: 18152219-18152533,18152688-18152777,18152863-18152963,18 153065-18153178 CTTCGTGAGAAGGCTGGGTTCTTGCTGTTTTCCCCAGACTTCAAGGAATCTGCAATTTACTAGC GAAAATGGGTGTATCAAGACCTCCAAGCACCCCTGCATCAAAGATTGAGCGCACACCGATGTCG ACCCCAACCCCTGGTGGCAGCACTAGGGTCAAGGAGGAGAAGATTTTTGTCACAGTGAGGGTGC GACCATTGAGCAAGAAAGAACTGGCCTTGAAGGATCAGGTGGCATGGGAGTGCGATGATAACCA GACAATTTTGTACAAGGGCCCCCCACAGGATCGGGCTGCACCCACCTCTTACACTTTCGACAAG GTGTTTGGACCAGCTTCCCAGACAGAAGTGGTGTATGAAGAGGGAGCTAAGGATGTTGCTATGT CTGCATTGACAGGCATTAATGCCACCATTTTTGCCTATGGTCAAACCAGCAGTGGTAAGACATT CACCATGAGAGGCGTCACAGAGAGTGCTGTAAATGATATATACAGGCACATAGAAAATACTCCT GAGAGGGACTTTATCATCAAGATATCTGCTATGGAAATTTACAATGAGATTGTGAAGGATCTTC TACGACCTGAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAG
Genomic sequence	CTTCGTGAGAAGGCTGGGTTCTTGCTGTTTTCCCCAGACTTCAAGGAATCTGCAATTTACTAGC GAAAATGGGTGTATCAAGACCTCCAAGCACCCCTGCATCAAAGATTGAGCGCACACCGATGTCG ACCCCAACCCCTGGTGGCAGCACTAGGGTCAAGGAGGAGAAGATTTTTGTCACAGTGAGGGTGC GACCATTGAGCAAGAAAGAACTGGCCTTGAAGGATCAGGTGGCATGGGAGTGCGATGATAACCA GACAATTTTGTACAAGGGCCCCCCACAGGATCGGGCTGCACCCACCTCTTACACTTTCGGTAGG CTTTTCAGTGATCTATTCATGACTGCATATCTCAAGCAATTATGTTTGTAGTGACACTCTTGAT CAATGACTTCATATCTCAATCCTATAAGTTTGAAGTTACCTCAGTAGCTAAATTGACTAATTTA AATTCCATCTTACCCTTCCAGACAAGGTGTTTGGACCAGCTTCCCAGACAGAAGTGGTGTATGA AGAGGGAGCTAAGGATGTTGCTATGTCTGCATTGACAGGCATTAATGGTAAATTAATTCTCACT CAGTAGTTTGAATAAAGTTGAATGATCCTTTATCTACTCTTTATTCTTTACCTTCCTTTGTTTT GCAGCCACCATTTTTGCCTATGGTCAAACCAGCAGTGGTAAGACATTCACCATGAGAGGCGTCA CAGAGAGTGCTGTAAATGATATATACAGGCACATAGAAAATGTGAGTTTTTTTATACATGGAGC AACAAAATCATGCTATCTATATTGCTTTCTAAAATGCACATAACACATAATTGTTTCTTGCTTT TGTTGATTGCATAGACTCCTGAGAGGGACTTTATCATCAAGATATCTGCTATGGAAATTTACAA TGAGATTGTGAAGGATCTTCTACGACCTGAGTCTACCAATCTTCGCTTGTTAGATGATCCTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_009640 						
					
						PMCS
						0.54920507

Conservation Information
Conserved circRNAs	osi_circ_009640
PMCS	0.54920507

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18153169-18152327(+)
18152288-18152278(+)
18152322-18153166(-)
						
						Potential amino acid sequence
						
							MILSFVRRLGSCCFPQTSRNLQFTSENGCIKTSKHPCIKD*(+)
MGVSRPPSTPASKIERTPMSTPTPGGSTRVKEEKIFVTVRVRPLSKKELALKDQVAWECDDNQT
ILYKGPPQDRAAPTSYTFDKVFGPASQTEVVYEEGAKDVAMSALTGINATIFAYGQTSSGKTFT
MRGVTESAVNDIYRHIENTPERDFIIKISAMEIYNEIVKDLLRPESTNLRLLDDPELREKAGFL
LFSPDFKESAIY*(+)
MQGCLEVLIHPFSLVNCRFLEVWGKQQEPSLLTKLRII*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18153169-18152327(+) 18152288-18152278(+) 18152322-18153166(-)
Potential amino acid sequence	MILSFVRRLGSCCFPQTSRNLQFTSENGCIKTSKHPCIKD(+) MGVSRPPSTPASKIERTPMSTPTPGGSTRVKEEKIFVTVRVRPLSKKELALKDQVAWECDDNQT ILYKGPPQDRAAPTSYTFDKVFGPASQTEVVYEEGAKDVAMSALTGINATIFAYGQTSSGKTFT MRGVTESAVNDIYRHIENTPERDFIIKISAMEIYNEIVKDLLRPESTNLRLLDDPELREKAGFL LFSPDFKESAIY(+) MQGCLEVLIHPFSLVNCRFLEVWGKQQEPSLLTKLRII*(-)
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 Os01g0513900_circ_g.6

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