Plant Circular RNA Database

Detail information of Os06g0470800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0470800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_030821
					
						Alias
						Os06circ09691/Os_ciR1557
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 15656218-15658100  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os06g0470800						
					
						Parent gene annotation
						
							Protein of unknown function DUF159 family protein. (Os06t0470800
-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0470800_circ_g.2 						
					
						Support reads
						2/12/6
					
						Tissues
						leaf/root/seed
					
						Exon boundary  
						
							Yes-No							"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
						Os06t0470800-01:1

General Information
CircRNA Name	Os06g0470800_circ_g.3
ID in PlantcircBase	osa_circ_030821
Alias	Os06circ09691/Os_ciR1557
Organism	Oryza sativa
Position	chr6: 15656218-15658100 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRI, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os06g0470800
Parent gene annotation	Protein of unknown function DUF159 family protein. (Os06t0470800 -01)
Parent gene strand	+
Alternative splicing	Os06g0470800_circ_g.2
Support reads	2/12/6
Tissues	leaf/root/seed
Exon boundary	Yes-No "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	Os06t0470800-01:1

			
						 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  
						
							GCCAGTAATCTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGTGCATCTGTGAAACTC
GAAGAAATTACAGTACCCTATGAAGGAGCAGATCTTtttctacgaatggaaaaaggatgggcca
aagaagatgccgtattacattcatttccaagatcagaggcctcttgtctttgctgccctctttg
acacttgg

									
								

					

						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: 179
Transcript exons: 15656218-15656304,15658009-15658100
TTTCTACGAATGGAAAAAGGATGGGCCAAAGAAGATGCCGTATTACATTCATTTCCAAGATCAG
AGGCCTCTTGTCTTTGCTGCCCTTCTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGT
GCATCTGTGAAACTCGAAGAAATTACAGTACCCTATGAAGGAGCAGATCTT
						
					

						Genomic sequence
						
							TTTCTACGAATGGAAAAAGGATGGGCCAAAGAAGATGCCGTATTACATTCATTTCCAAGATCAG
AGGCCTCTTGTCTTTGCTGCCCTCTTTGACACTTGGACAAACTCGGAAGGTTAGCATGCACATT
TGTCAATTAACTTTCTAGTCTTTGGAAGCCATGATTATGGTACTAAGAATGTGTTTCAGTGTAA
TCACATTTTCTTAAAGTAGTCTTGGGAGTTGCTGCAAAAGATATGTTGTCCTGTTAATGCTGCA
GCTTATTTATTCCAACATCTGTGGTTGTAATTACTAATTGGTCTTATTTAGCTTCCTAAAAGGT
TTTATCTGCATATATGACATTGTAAATGAAACAAGTTGTAGTATGATATATTTTTGTACTGGTT
TAACGCCATGTTTGTAAAGATCTAACATGGTTGCTCAGTTTTGCTTTGTGCCTGCTCTGTCTGC
ACATAGTTGTAAACATATTATATCCACATCCTGCTTTATATCTAGATCATGTCTTATCATAAGC
GGTGCGACAAGTTCATGTTGTCTTGTGATCAAAATTGCAAATATGGATGAACTGTGATAATGAA
CATTTGCAGGCATGTACTGAACTTGAAGTAGTGCTGTCATCAAGTGTTTCACATTTTTTAAATC
TAATTTATGCCATGCGCTGCGCTGCGCTGCGCATTAAATGCCTAACATTATTAATTACATAGAA
GAACTGCATTCTGAATAGTACAATATGCATATCATTATGATAGGGAAAAGCTTTCAGATACGAG
TTCCACTGTACAATGTCCCAGAACTACATGTTTGGTGTTTGGCTTTTTGATTGTAAAAATAATA
CGACGTTTTGCTCTACAAATATTGACAGATTTAGTATATAAATTGTCTAGCATGCACTCACACT
ACCAACTCTTATCTGCTATCCTTTTGTCTACATTTTAAGGAACCATTTTATTAATGCATTTTTT
ATTGAGCTGAATTATTGATGCATATTTCAAAACACTTTCTGCTGTTCACATACGTCAGTTTATC
ACATGTTCGGATTAATTGATTATGCCACTTTAGACTTTTGTTGCTCCAATCGGTAAAATGATAA
TTTACTTGTTTGAGTATTAATATTATCTGCTATTTCCCCAGGAGAAACCATCCATACTTTTACT
ATTTTGACTACTCGGGCCTCGATTTCTCTAAAATGGCTTCATGGTTAGCTAGATACTCTCTACC
CCCCATGATCTCAGATTATTCATATATTTACTATTTCGATACATGTGTGATAAGGCTGCTTTTG
AATTGGCTTCATGGTTAGTAGGGTTAATAACAAAACCCTGTTATTTTACACTATATCAAGCTGA
CATTTATTTGTACACACCTACTCTGGTCTTCGTAGCTAGTGACATTACTGGAAGTTTGTAATGT
TTAGCTTGTTAATGCACTGTTCCTATTAATTTTCACTTTACAATATCTTATTTAGAGGCAGGCA
AGGAGAAAGCCAGTTGATTTTCAATTAAAAGATAGTATATATCATTGATGATAGTACAATATTG
CCTTTAACAGTACTGATGCATCTGTATTTTACTTTATATGATAAGTTGTCCTTGTAGTTCAATT
TAATTGAGAAAACAGATTATACCTTTTTCTGGTAATGGATGTATGAAAAATGTTTTTGCCAAGT
CTATCAGGTCTTGATATACGAGTACTTATTATACTGTTGCACACAATGTTTTTATGACTTGCTA
CCTTTTGATTTGATTTGGCACCTTCTGAGTCTGCATGTGACTTAACAGATAGAATGCCAGTAAT
CTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGTGCATCTGTGAAACTCGAAGAAATT
ACAGTACCCTATGAAGGAGCAGATCTT
						
					

			
		

Sequences
Splice junction sequence	GCCAGTAATCTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGTGCATCTGTGAAACTC GAAGAAATTACAGTACCCTATGAAGGAGCAGATCTTtttctacgaatggaaaaaggatgggcca aagaagatgccgtattacattcatttccaagatcagaggcctcttgtctttgctgccctctttg acacttgg
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: 179 Transcript exons: 15656218-15656304,15658009-15658100 TTTCTACGAATGGAAAAAGGATGGGCCAAAGAAGATGCCGTATTACATTCATTTCCAAGATCAG AGGCCTCTTGTCTTTGCTGCCCTTCTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGT GCATCTGTGAAACTCGAAGAAATTACAGTACCCTATGAAGGAGCAGATCTT
Genomic sequence	TTTCTACGAATGGAAAAAGGATGGGCCAAAGAAGATGCCGTATTACATTCATTTCCAAGATCAG AGGCCTCTTGTCTTTGCTGCCCTCTTTGACACTTGGACAAACTCGGAAGGTTAGCATGCACATT TGTCAATTAACTTTCTAGTCTTTGGAAGCCATGATTATGGTACTAAGAATGTGTTTCAGTGTAA TCACATTTTCTTAAAGTAGTCTTGGGAGTTGCTGCAAAAGATATGTTGTCCTGTTAATGCTGCA GCTTATTTATTCCAACATCTGTGGTTGTAATTACTAATTGGTCTTATTTAGCTTCCTAAAAGGT TTTATCTGCATATATGACATTGTAAATGAAACAAGTTGTAGTATGATATATTTTTGTACTGGTT TAACGCCATGTTTGTAAAGATCTAACATGGTTGCTCAGTTTTGCTTTGTGCCTGCTCTGTCTGC ACATAGTTGTAAACATATTATATCCACATCCTGCTTTATATCTAGATCATGTCTTATCATAAGC GGTGCGACAAGTTCATGTTGTCTTGTGATCAAAATTGCAAATATGGATGAACTGTGATAATGAA CATTTGCAGGCATGTACTGAACTTGAAGTAGTGCTGTCATCAAGTGTTTCACATTTTTTAAATC TAATTTATGCCATGCGCTGCGCTGCGCTGCGCATTAAATGCCTAACATTATTAATTACATAGAA GAACTGCATTCTGAATAGTACAATATGCATATCATTATGATAGGGAAAAGCTTTCAGATACGAG TTCCACTGTACAATGTCCCAGAACTACATGTTTGGTGTTTGGCTTTTTGATTGTAAAAATAATA CGACGTTTTGCTCTACAAATATTGACAGATTTAGTATATAAATTGTCTAGCATGCACTCACACT ACCAACTCTTATCTGCTATCCTTTTGTCTACATTTTAAGGAACCATTTTATTAATGCATTTTTT ATTGAGCTGAATTATTGATGCATATTTCAAAACACTTTCTGCTGTTCACATACGTCAGTTTATC ACATGTTCGGATTAATTGATTATGCCACTTTAGACTTTTGTTGCTCCAATCGGTAAAATGATAA TTTACTTGTTTGAGTATTAATATTATCTGCTATTTCCCCAGGAGAAACCATCCATACTTTTACT ATTTTGACTACTCGGGCCTCGATTTCTCTAAAATGGCTTCATGGTTAGCTAGATACTCTCTACC CCCCATGATCTCAGATTATTCATATATTTACTATTTCGATACATGTGTGATAAGGCTGCTTTTG AATTGGCTTCATGGTTAGTAGGGTTAATAACAAAACCCTGTTATTTTACACTATATCAAGCTGA CATTTATTTGTACACACCTACTCTGGTCTTCGTAGCTAGTGACATTACTGGAAGTTTGTAATGT TTAGCTTGTTAATGCACTGTTCCTATTAATTTTCACTTTACAATATCTTATTTAGAGGCAGGCA AGGAGAAAGCCAGTTGATTTTCAATTAAAAGATAGTATATATCATTGATGATAGTACAATATTG CCTTTAACAGTACTGATGCATCTGTATTTTACTTTATATGATAAGTTGTCCTTGTAGTTCAATT TAATTGAGAAAACAGATTATACCTTTTTCTGGTAATGGATGTATGAAAAATGTTTTTGCCAAGT CTATCAGGTCTTGATATACGAGTACTTATTATACTGTTGCACACAATGTTTTTATGACTTGCTA CCTTTTGATTTGATTTGGCACCTTCTGAGTCTGCATGTGACTTAACAGATAGAATGCCAGTAAT CTTGGGTGACAAAGACTCCATTAGTACTTGGTTGAACGGTGCATCTGTGAAACTCGAAGAAATT ACAGTACCCTATGAAGGAGCAGATCTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006718* osi_circ_016179 						
					
						PMCS
						0.434955665

Conservation Information
Conserved circRNAs	osi_circ_006718* osi_circ_016179
PMCS	0.434955665

			
						 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
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os06g0470800_circ_g.3

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