Plant Circular RNA Database

Detail information of Os06g0474900_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os06g0474900_circ_g.4
					
						ID in PlantcircBase
						osa_circ_030848
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 15927587-15929676  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0474900						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os06t0474900-01);Conserved hypo
thetical protein. (Os06t0474900-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0474900_circ_g.2 Os06g0474900_circ_g.3 Os06g0474900_circ_g.5 						
					
						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
						Os06t0474900-02:8
Os06t0474900-01:1

General Information
CircRNA Name	Os06g0474900_circ_g.4
ID in PlantcircBase	osa_circ_030848
Alias	NA
Organism	Oryza sativa
Position	chr6: 15927587-15929676 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0474900
Parent gene annotation	Conserved hypothetical protein. (Os06t0474900-01);Conserved hypo thetical protein. (Os06t0474900-02)
Parent gene strand	-
Alternative splicing	Os06g0474900_circ_g.2 Os06g0474900_circ_g.3 Os06g0474900_circ_g.5
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	Os06t0474900-02:8 Os06t0474900-01:1

			
						 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  
						
							TTTTACTGATGCCACTATGACGCACCACCAAATGCCCACTTGTGTGAAGTAGCATTCGAATGAA
GAAACTTGGGGTGAATCCTTAAGTGGTTCTGATCACctcttcatcagatgcaaagtcaagttcc
atttcccatgcatcgttgaaccacaagttgaacacaattagtttggtaccatggcatcccatgt
ctccaaac

									
								

					

						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
						
							CTCTTCATCAGATGCAAAGTCAAGTTCCATTTCCCATGCATCGTTGAACCACAAGTTGAACACA
ATTAGTTTGGTACCATGGCATCCCATGTCTCCAAACTGAAAGAAAATGTATGAGTATGTGAAAA
TCTTGAACAGCCTGCTGTCTAAATATGAAAAAAGATATATACCATGAGCAATTGCACATCGAGA
CAAAGTCTAGATATTCGCCAATAACAATAACAATAACAATAAATCTTTGTGTTACACCTACCAG
TCAGGAACATATATTCTTTTTGACATTAAAATGGCCCCAATCATGTTACTTTGACCACTGATTT
ACATTGTAATATACTTTTAGAATTTCATAAAATTGTAATATTATTAAAGTATTTTTCTGGCAAA
TTTATGCATATGGATTTTATGTATCCAGTCATAATAAAGAATATTGATGCTCAAAGTTTAGAAA
ATTTAACTTTACATATGTTCAAAACATGTTTCCACACGTAGGGGGAGTATAAAGTAGTTATGCT
ATCATTGAAGAACTAACTATTACTTGTATTTGGTGTATCTGCATATTTGATTCTTAGGATACCG
TGACCCAATAAAATCATTTGCAACATATATTTACAAAATGTATTATGGTAGATATAAAGAAACA
AAGATAAATAGAGAAACTTACTTGATTCAATAAATCATCTTCTGTAGTAAATGGAGACCACTTC
AAAAGAGTGGACAAATTGGAAGAAAAATGTTTCTCACCACGGTCCATTATCTTCTTGAGAGTAT
GAGATGATTCATCAAATTCATAATCAACCTACAAAGAAAATAACAGAAAGTTTCTCTAGTTGAT
TATAAAATTAGTGTCATGTACAGACCAAAATTGAAGAGCCATATGCACGTAACTAGTTTGCTGA
AAACTTTTACTACTAGCTAACTTCTGCATTGAAACAAAGTTAAGTTGATATAGGTTATGTAGCT
AACAAGTTAATGGACTGACCACTGGTACTAATATGTCATTGCAGCCAGTTTTTGTAAGGAATGT
ATAAGAGAGTAGACCAATACTCCGTGTCAATCTCCTGTCAAAACATTAACATAAACAGAGTTAG
CTCAATAAATCAGAGAGAACTGAAAGCAACATTTAATATAATTAATATTTTGCTTCAATGATTA
ACATCATGTGGTGATTTTCAGGGTCAGTAAGAACCAAAGAGGTTGAGGAATTGACGCTAAATAT
GTTGATGAAACAGTATTACTCTGCATTGACTTTTCTTATCTGAATATAAATATTATAAGAAGAT
AATGTAATGTTAAATTAGGAAGAACCTATTATCTTGTGTGCAGCTGAATACAATAACATCTGCT
CCAAGTCTCATTGTGCTGGTTTTGAACCCATTTCCATCTAGTAGTGGTGAACTTGCAAATCAGG
TTCTGAAGTATTAAGCAATAGACAGGGGCCAAAGGCACTGTTCAGAACTCTTACATTGTCCAAT
GGATGAATTCCCACTTTTTTTGGAGAACCCAAAGCTCATGCAATGTCGAAGAGACTCTGGACTC
ATACCACCTCCATCATCTTGAAATAGAATTTAAGAATATCAGTTATAATAAACAATACACACAA
TATTTCTACTTAGGAAAAAACTTCATGCAGAAAATTCCTTCAGAGAAAAACATATTACATCAGC
AACACAATTAGATAGTACAAATTTGAATGATACCTTGTATTACCAATGAATACTCATCAATGAG
AGAACATTTTATCTTATCTATCTTCACAAAGGTTGCTCCATTGTTCACCTTTTCCATGTTAAAC
ATGTAAAACAACAGAATTGAAACACAAATAATGTTGACAGAGTTTAGCATTGATATATTTAAAT
CAAAACCTCATCAACAGCATTGTCGAGAAGTTCTGCAATAGCTGTAGAAACAAAATTTAATCAA
TAAATCACCCTTGAGTACATGTCTGAATAGTTAAGAGCACATATACAAAAGCAGAAGAAAAGTG
CAAAGCTTTTACTGATGCCACTATGACGCACCACCAAATGCCCACTTGTGTGAAGTAGCATTCG
AATGAAGAAACTTGGGGTGAATCCTTAAGTGGTTCTGATCAC
						
					

			
		

Sequences
Splice junction sequence	TTTTACTGATGCCACTATGACGCACCACCAAATGCCCACTTGTGTGAAGTAGCATTCGAATGAA GAAACTTGGGGTGAATCCTTAAGTGGTTCTGATCACctcttcatcagatgcaaagtcaagttcc atttcccatgcatcgttgaaccacaagttgaacacaattagtttggtaccatggcatcccatgt ctccaaac
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	CTCTTCATCAGATGCAAAGTCAAGTTCCATTTCCCATGCATCGTTGAACCACAAGTTGAACACA ATTAGTTTGGTACCATGGCATCCCATGTCTCCAAACTGAAAGAAAATGTATGAGTATGTGAAAA TCTTGAACAGCCTGCTGTCTAAATATGAAAAAAGATATATACCATGAGCAATTGCACATCGAGA CAAAGTCTAGATATTCGCCAATAACAATAACAATAACAATAAATCTTTGTGTTACACCTACCAG TCAGGAACATATATTCTTTTTGACATTAAAATGGCCCCAATCATGTTACTTTGACCACTGATTT ACATTGTAATATACTTTTAGAATTTCATAAAATTGTAATATTATTAAAGTATTTTTCTGGCAAA TTTATGCATATGGATTTTATGTATCCAGTCATAATAAAGAATATTGATGCTCAAAGTTTAGAAA ATTTAACTTTACATATGTTCAAAACATGTTTCCACACGTAGGGGGAGTATAAAGTAGTTATGCT ATCATTGAAGAACTAACTATTACTTGTATTTGGTGTATCTGCATATTTGATTCTTAGGATACCG TGACCCAATAAAATCATTTGCAACATATATTTACAAAATGTATTATGGTAGATATAAAGAAACA AAGATAAATAGAGAAACTTACTTGATTCAATAAATCATCTTCTGTAGTAAATGGAGACCACTTC AAAAGAGTGGACAAATTGGAAGAAAAATGTTTCTCACCACGGTCCATTATCTTCTTGAGAGTAT GAGATGATTCATCAAATTCATAATCAACCTACAAAGAAAATAACAGAAAGTTTCTCTAGTTGAT TATAAAATTAGTGTCATGTACAGACCAAAATTGAAGAGCCATATGCACGTAACTAGTTTGCTGA AAACTTTTACTACTAGCTAACTTCTGCATTGAAACAAAGTTAAGTTGATATAGGTTATGTAGCT AACAAGTTAATGGACTGACCACTGGTACTAATATGTCATTGCAGCCAGTTTTTGTAAGGAATGT ATAAGAGAGTAGACCAATACTCCGTGTCAATCTCCTGTCAAAACATTAACATAAACAGAGTTAG CTCAATAAATCAGAGAGAACTGAAAGCAACATTTAATATAATTAATATTTTGCTTCAATGATTA ACATCATGTGGTGATTTTCAGGGTCAGTAAGAACCAAAGAGGTTGAGGAATTGACGCTAAATAT GTTGATGAAACAGTATTACTCTGCATTGACTTTTCTTATCTGAATATAAATATTATAAGAAGAT AATGTAATGTTAAATTAGGAAGAACCTATTATCTTGTGTGCAGCTGAATACAATAACATCTGCT CCAAGTCTCATTGTGCTGGTTTTGAACCCATTTCCATCTAGTAGTGGTGAACTTGCAAATCAGG TTCTGAAGTATTAAGCAATAGACAGGGGCCAAAGGCACTGTTCAGAACTCTTACATTGTCCAAT GGATGAATTCCCACTTTTTTTGGAGAACCCAAAGCTCATGCAATGTCGAAGAGACTCTGGACTC ATACCACCTCCATCATCTTGAAATAGAATTTAAGAATATCAGTTATAATAAACAATACACACAA TATTTCTACTTAGGAAAAAACTTCATGCAGAAAATTCCTTCAGAGAAAAACATATTACATCAGC AACACAATTAGATAGTACAAATTTGAATGATACCTTGTATTACCAATGAATACTCATCAATGAG AGAACATTTTATCTTATCTATCTTCACAAAGGTTGCTCCATTGTTCACCTTTTCCATGTTAAAC ATGTAAAACAACAGAATTGAAACACAAATAATGTTGACAGAGTTTAGCATTGATATATTTAAAT CAAAACCTCATCAACAGCATTGTCGAGAAGTTCTGCAATAGCTGTAGAAACAAAATTTAATCAA TAAATCACCCTTGAGTACATGTCTGAATAGTTAAGAGCACATATACAAAAGCAGAAGAAAAGTG CAAAGCTTTTACTGATGCCACTATGACGCACCACCAAATGCCCACTTGTGTGAAGTAGCATTCG AATGAAGAAACTTGGGGTGAATCCTTAAGTGGTTCTGATCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016188 						
					
						PMCS
						0.112340949

Conservation Information
Conserved circRNAs	osi_circ_016188
PMCS	0.112340949

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15929633-15929661(-)
						
						Potential amino acid sequence
						
							MLLHTSGHLVVRHSGITIAELLDNAVDEVNNGATFVKIDKIKCSLIDEYSLVIQDDGGGMSPES
LRHCMSFGFSKKSGNSSIGQYGNGFKTSTMRLGADVIVFSCTQDNRRLTRSIGLLSYTFLTKTG
CNDILVPVVDYEFDESSHTLKKIMDRGEKHFSSNLSTLLKWSPFTTEDDLLNQFGDMGCHGTKL
IVFNLWFNDAWEMELDFASDEEVIRTT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15929633-15929661(-)
Potential amino acid sequence	MLLHTSGHLVVRHSGITIAELLDNAVDEVNNGATFVKIDKIKCSLIDEYSLVIQDDGGGMSPES LRHCMSFGFSKKSGNSSIGQYGNGFKTSTMRLGADVIVFSCTQDNRRLTRSIGLLSYTFLTKTG CNDILVPVVDYEFDESSHTLKKIMDRGEKHFSSNLSTLLKWSPFTTEDDLLNQFGDMGCHGTKL IVFNLWFNDAWEMELDFASDEEVIRTT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0474900_circ_g.4

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