Plant Circular RNA Database

Detail information of Os06g0496000_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os06g0496000_circ_g.6
					
						ID in PlantcircBase
						osa_circ_030945
					
						Alias
						Os_ciR10385
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 17315675-17317799  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0496000						
					
						Parent gene annotation
						
							Like-Sm ribonucleoprotein (LSM)-related domain domain containing
 protein. (Os06t0496000-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0496000_circ_g.7 Os06g0496000_circ_g.8 Os06g0496000_circ_g.9 						
					
						Support reads
						2/5
					
						Tissues
						root/shoot, root
					
						Exon boundary  
						
							No-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
						Os06t0496000-01:3

General Information
CircRNA Name	Os06g0496000_circ_g.6
ID in PlantcircBase	osa_circ_030945
Alias	Os_ciR10385
Organism	Oryza sativa
Position	chr6: 17315675-17317799 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0496000
Parent gene annotation	Like-Sm ribonucleoprotein (LSM)-related domain domain containing protein. (Os06t0496000-01)
Parent gene strand	+
Alternative splicing	Os06g0496000_circ_g.7 Os06g0496000_circ_g.8 Os06g0496000_circ_g.9
Support reads	2/5
Tissues	root/shoot, root
Exon boundary	No-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	Os06t0496000-01:3

			
						 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  
						
							CCATCTCGGTAAAAGCAAAGGACAGTTGAACGATGATCCTAATGAGTATGAAGATGATGTTCTA
GAAGATGATATTTCTCCTGGGAAGCCAGAAGTTAAGctggagcaaaacaatgaagataggcaca
ccaagaaacctgaatggaaggctaaacaacactctgttgctccatccaacaaggaacccctgtt
gccagcac

									
								

					

						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
						
							CTGGAGCAAAACAATGAAGATAGGCACACCAAGAAACCTGAATGGAAGGCTAAACAACACTCTG
TTGCTCCATCCAACAAGGAACCCCTGTTGCCAGCACCTAAGCCTACTCTTCAGAAGGTAATAGC
ATACTAAATTTAATTTTTATTACACAAGTACAAGGGAAGATTATTTTTGGTACCATTATTTCCA
TACTCAGTTAATGTGCGCGATTTGTATACTCTGTAATTAGTCCCATTTTCAATCCTTTGGTTTC
AGCCTGTTGGAGCTTCCTCATACATTCAATACAACAATAGAGGCCGAGGAAGAGGAAGAGGCCG
AGGAAGAGGAATTGGGGTATGGTATCTAAAACATGTTTTATACGCCTTCAACTGTTCAAATGTA
GAAATCCTTAATGGCTAAAACATTCTTGGATTATTTTCCCTGTTTGGTACTGTTACCATGTTTG
GCTACTGCTCCCATGTTAGTATTCTTCTGGATTTGATTGTACTCCCTCTGTTTGAAAATATAAG
GTGTCCTTGTTTTCCACAAAGTCAGCATTTAAAATTTTTGACTATCTGAAAATATTTTCATGCG
ATATTAATTTTGTAGTTATTGATAATATATTATGAAAGAAATTAATGTCAAAGTATAATGTTGG
AGACTATTTAGAAACCTAATACGCCTTATATTTTCAAATGGAGGGAGTAATGTTTAGTACTGGT
TCTATTCACCTCTCTTCTCTGGGTATCATTCTGTACGGTATTGTGGATGCCCTTTTCTGATGTT
CGTCATGTAGGACAGTATTCTCAACATTATTATTTTCAAATTCCAAGATGCTAGGTGTGCAATA
CTGATGTAGGACAATCATCTATTGATGTCCAGTCATCAGATCACAGTTGGGCTCATTGATGGAG
TATACAAGAGAGAATGTGGTTTTTGGTATTGGATGAGGAAATCTCTTGTGGCTATTGTCAAAAT
CAGTTGGAAGTTATTAGGATACTCCATTGTTTTGTAGGTTGTTGATCATGTGGCTACATTTGAT
CCTAATAGGTTGTTGATTTTGTTTACAAAATGCTTGTAGAATATAGTGTTACTAAATTCCCAAA
TGGCCAAAATAGCTGGTATTAATACTATTACTCTAGTCCTCCTCATTTATTCCTAGCCACGGTA
GCACTTTTCCTGGATGTGTTAGTACACAATTTATCTTTCAATTTGCTGCTTGCCTCCACACTCA
TTGCTGTTATCATGCTCCCTCTCAGCCACATTGAAAATTGCCGTTTAGCTTTGTGCCATCCACC
ATGGGATGGGAAAATGGTTTGGCTGTCAAATAATTTGGACTACCAGTAGTGAAAGGTAAATCAT
ATGTAATTGGGTGAAGCAGATTGCAAGTAGAAAGGCATTAGTACCTCCTTTGTCTGTCTTTTGA
CCTAAGAATATCTTTATTCCAAATGGAGGGATATCCAGCCTAGTCTATCAGTATTTGGATAAAG
AATACATATGTTTGGCTCCTTTGTTTGCTCTGATTTCTGAAGTTGGGAAGGATTTCAATGCTTT
TGAGGGAGGGCTAATTTGACTCTCCTCTCCTAGCTAGATTTGCTTGCCCAGGCTAGAAAAAGAA
CAAAACATGCCCTTCGTAACTGGGTCATCAAACTATTCGATGAGACCACGTTCCACATTTGACA
CTTGTTCTTGAAGTAACTGTTCCCTGTTTTGACACACAGTTTTAGTTGCTTCCTGTAACCCCAT
TCCTCGACCTAAATGCTCCATGTTCCTGTTAACTATGAGCAATTTCAATATATATATTTGTCCA
AATCATGCTAACTAGACTGTCAAAGGCACATCCCTCTGCTAGCATATGAGTTTTGATGTATTAT
AGGATGCTGAAATCTGTTCTGCATGAATCATATGCTATGTTATTGAAATTGTAAAATTTGTATA
CTTATTAGTTTCCCCTCTCCAGCAATCACGTCCTATAACCAAGTTTACAGAGGACTTCGATTTC
ATGGCAATGAATGAGAAGTTTAACAAAGATGAAGTATGGGGCCATCTCGGTAAAAGCAAAGGAC
AGTTGAACGATGATCCTAATGAGTATGAAGATGATGTTCTAGAAGATGATATTTCTCCTGGGAA
GCCAGAAGTTAAG
						
					

			
		

Sequences
Splice junction sequence	CCATCTCGGTAAAAGCAAAGGACAGTTGAACGATGATCCTAATGAGTATGAAGATGATGTTCTA GAAGATGATATTTCTCCTGGGAAGCCAGAAGTTAAGctggagcaaaacaatgaagataggcaca ccaagaaacctgaatggaaggctaaacaacactctgttgctccatccaacaaggaacccctgtt gccagcac
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	CTGGAGCAAAACAATGAAGATAGGCACACCAAGAAACCTGAATGGAAGGCTAAACAACACTCTG TTGCTCCATCCAACAAGGAACCCCTGTTGCCAGCACCTAAGCCTACTCTTCAGAAGGTAATAGC ATACTAAATTTAATTTTTATTACACAAGTACAAGGGAAGATTATTTTTGGTACCATTATTTCCA TACTCAGTTAATGTGCGCGATTTGTATACTCTGTAATTAGTCCCATTTTCAATCCTTTGGTTTC AGCCTGTTGGAGCTTCCTCATACATTCAATACAACAATAGAGGCCGAGGAAGAGGAAGAGGCCG AGGAAGAGGAATTGGGGTATGGTATCTAAAACATGTTTTATACGCCTTCAACTGTTCAAATGTA GAAATCCTTAATGGCTAAAACATTCTTGGATTATTTTCCCTGTTTGGTACTGTTACCATGTTTG GCTACTGCTCCCATGTTAGTATTCTTCTGGATTTGATTGTACTCCCTCTGTTTGAAAATATAAG GTGTCCTTGTTTTCCACAAAGTCAGCATTTAAAATTTTTGACTATCTGAAAATATTTTCATGCG ATATTAATTTTGTAGTTATTGATAATATATTATGAAAGAAATTAATGTCAAAGTATAATGTTGG AGACTATTTAGAAACCTAATACGCCTTATATTTTCAAATGGAGGGAGTAATGTTTAGTACTGGT TCTATTCACCTCTCTTCTCTGGGTATCATTCTGTACGGTATTGTGGATGCCCTTTTCTGATGTT CGTCATGTAGGACAGTATTCTCAACATTATTATTTTCAAATTCCAAGATGCTAGGTGTGCAATA CTGATGTAGGACAATCATCTATTGATGTCCAGTCATCAGATCACAGTTGGGCTCATTGATGGAG TATACAAGAGAGAATGTGGTTTTTGGTATTGGATGAGGAAATCTCTTGTGGCTATTGTCAAAAT CAGTTGGAAGTTATTAGGATACTCCATTGTTTTGTAGGTTGTTGATCATGTGGCTACATTTGAT CCTAATAGGTTGTTGATTTTGTTTACAAAATGCTTGTAGAATATAGTGTTACTAAATTCCCAAA TGGCCAAAATAGCTGGTATTAATACTATTACTCTAGTCCTCCTCATTTATTCCTAGCCACGGTA GCACTTTTCCTGGATGTGTTAGTACACAATTTATCTTTCAATTTGCTGCTTGCCTCCACACTCA TTGCTGTTATCATGCTCCCTCTCAGCCACATTGAAAATTGCCGTTTAGCTTTGTGCCATCCACC ATGGGATGGGAAAATGGTTTGGCTGTCAAATAATTTGGACTACCAGTAGTGAAAGGTAAATCAT ATGTAATTGGGTGAAGCAGATTGCAAGTAGAAAGGCATTAGTACCTCCTTTGTCTGTCTTTTGA CCTAAGAATATCTTTATTCCAAATGGAGGGATATCCAGCCTAGTCTATCAGTATTTGGATAAAG AATACATATGTTTGGCTCCTTTGTTTGCTCTGATTTCTGAAGTTGGGAAGGATTTCAATGCTTT TGAGGGAGGGCTAATTTGACTCTCCTCTCCTAGCTAGATTTGCTTGCCCAGGCTAGAAAAAGAA CAAAACATGCCCTTCGTAACTGGGTCATCAAACTATTCGATGAGACCACGTTCCACATTTGACA CTTGTTCTTGAAGTAACTGTTCCCTGTTTTGACACACAGTTTTAGTTGCTTCCTGTAACCCCAT TCCTCGACCTAAATGCTCCATGTTCCTGTTAACTATGAGCAATTTCAATATATATATTTGTCCA AATCATGCTAACTAGACTGTCAAAGGCACATCCCTCTGCTAGCATATGAGTTTTGATGTATTAT AGGATGCTGAAATCTGTTCTGCATGAATCATATGCTATGTTATTGAAATTGTAAAATTTGTATA CTTATTAGTTTCCCCTCTCCAGCAATCACGTCCTATAACCAAGTTTACAGAGGACTTCGATTTC ATGGCAATGAATGAGAAGTTTAACAAAGATGAAGTATGGGGCCATCTCGGTAAAAGCAAAGGAC AGTTGAACGATGATCCTAATGAGTATGAAGATGATGTTCTAGAAGATGATATTTCTCCTGGGAA GCCAGAAGTTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006764* osi_circ_016238 						
					
						PMCS
						0.577098727

Conservation Information
Conserved circRNAs	osi_circ_006764* osi_circ_016238
PMCS	0.577098727

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os06g0496000_circ_g.6

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