Plant Circular RNA Database

Detail information of Os06g0167500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0167500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_029813
					
						Alias
						Os_ciR10684
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 3413682-3415066  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0167500						
					
						Parent gene annotation
						
							Leucine-rich repeat, plant specific containing protein. (Os06t01
67500-01);Hypothetical conserved gene. (Os06t0167500-02);Hypothe
tical conserved gene. (Os06t0167500-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0167500_circ_g.1 Os06g0167500_circ_g.3 Os06g0167500_circ_g.4 Os06g0167500_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						root
					
						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
						Os06t0167500-02:2
Os06t0167500-03:1
Os06t0167500-01:2

General Information
CircRNA Name	Os06g0167500_circ_g.2
ID in PlantcircBase	osa_circ_029813
Alias	Os_ciR10684
Organism	Oryza sativa
Position	chr6: 3413682-3415066 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os06g0167500
Parent gene annotation	Leucine-rich repeat, plant specific containing protein. (Os06t01 67500-01);Hypothetical conserved gene. (Os06t0167500-02);Hypothe tical conserved gene. (Os06t0167500-03)
Parent gene strand	+
Alternative splicing	Os06g0167500_circ_g.1 Os06g0167500_circ_g.3 Os06g0167500_circ_g.4 Os06g0167500_circ_g.5
Support reads	2
Tissues	root
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	Os06t0167500-02:2 Os06t0167500-03:1 Os06t0167500-01:2

			
						 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  
						
							TACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAATGGATC
TCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCTagatttgagatcaaacaacttgtcagga
tcaattgaccttcagcagtacgatagtagcctaaagtacctgtaagttggattcttcgtgaaat
atgatttg

									
								

					

						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: 135
Transcript exons: 3413682-3413750,3415001-3415066
AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG
TACCTTTATGTAGGTGAAAACAATTTCAATGGATCTCTGCCTGATCAAATGCCTCAATCACTAG
TTGCTCT
Transcript length: 1385
Transcript exons: 3413682-3415066
AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG
TACCTGTAAGTTGGATTCTTCGTGAAATATGATTTGTTAAATAAGAAAATTAATTTCGGATGAG
ATGCTTGCGTTAGGGAACTTGGTAGTGCTTGCAAGTTCAAGTTAAAACCCATTGTACATGTTGA
CCAGGTCGCTCAACAGCTTTTCTTTACATGTATCTTGGGATATGACCTTTCAGTCAGTAATGAC
ATAGACAAGCGACATCTTTAAACTATCATGTTGTCTTTAAACTATTAAGGATGGATGGCGAAAT
TAATGTATCTTTGCTGTCCGAGTTTCCTCATTGCTATCCTTGCCAAAAAGGAAAGTCTTCGTTT
TCTAGAGACCTTGCTTGGTTGCATTTGTGCCAGGGTTTGCCTGTCTACTCGTCTGGCTTGGAAT
ATCTACTTCAATATCTGATTTATCATCACTAACTATGTAATTTTAATGTCCAAACAATAGTAAG
AGGCCTTCAGGGGCACGAGAAGATGACAATACTGCCACCAGGGATGAACCTGCCTCAAAGAATA
TGATGTGTTTCACAATGCTGTGATTAATCCGTCATCTGAACACGTCACTTCTGAAATTCTTGCA
GTGCCATACTTTTGTTCAACTGTAGGATTGTGTTCTGGGGAAGCTATTGTTTCTAATTGAGAGC
TGAAATCATGCTATACTTACGAATATTTTCAGTCTTCCACCAGCACTTCAGGAATTTGTAATTG
ACCATGCTATACTTTTCAGAATATGAATTCCCAGTATGTTGTAGAGTCAGCTTCTAAGCTCTAA
TTCGTGCGCAAAATTTGGAAACCTTATACATTTTAAAGTTTTATCTAATTACCTTTTCTTTTTA
CCGAAGGTTTTATCTAACTATCTTGAGAGCTAACATGTTTATTTCAAATTATCAGTTTGAATCT
GGCTAAGGCTGTGTTCTTTGCCTCAAGTTTGAGAGACATTTTTAGCGCACGCGAAACGAGAAAG
CTCATTAACACATGATTAATTAAGTATTGATAATTATAAACTTAAAAAATGGATTTATTTGAAT
TTTTAAAACAACTTCTATATAGATTTTTTTTAAAAAAAGTATCATTTAACAGTTTGAAAAGCGT
GCTAACGGAAAATGAGGAAGTTGAAATTTGGAGTTGAAGAAAAGAACTAGGCCTAAATCAATAA
ACTATTGGTCATTGGGGTGCATATATTATTATTTATTCTTTTCCATTTTTATTTTTCCAAGTTA
TTGTTTACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAAT
GGATCTCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCT
						
					

						Genomic sequence
						
							AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG
TACCTGTAAGTTGGATTCTTCGTGAAATATGATTTGTTAAATAAGAAAATTAATTTCGGATGAG
ATGCTTGCGTTAGGGAACTTGGTAGTGCTTGCAAGTTCAAGTTAAAACCCATTGTACATGTTGA
CCAGGTCGCTCAACAGCTTTTCTTTACATGTATCTTGGGATATGACCTTTCAGTCAGTAATGAC
ATAGACAAGCGACATCTTTAAACTATCATGTTGTCTTTAAACTATTAAGGATGGATGGCGAAAT
TAATGTATCTTTGCTGTCCGAGTTTCCTCATTGCTATCCTTGCCAAAAAGGAAAGTCTTCGTTT
TCTAGAGACCTTGCTTGGTTGCATTTGTGCCAGGGTTTGCCTGTCTACTCGTCTGGCTTGGAAT
ATCTACTTCAATATCTGATTTATCATCACTAACTATGTAATTTTAATGTCCAAACAATAGTAAG
AGGCCTTCAGGGGCACGAGAAGATGACAATACTGCCACCAGGGATGAACCTGCCTCAAAGAATA
TGATGTGTTTCACAATGCTGTGATTAATCCGTCATCTGAACACGTCACTTCTGAAATTCTTGCA
GTGCCATACTTTTGTTCAACTGTAGGATTGTGTTCTGGGGAAGCTATTGTTTCTAATTGAGAGC
TGAAATCATGCTATACTTACGAATATTTTCAGTCTTCCACCAGCACTTCAGGAATTTGTAATTG
ACCATGCTATACTTTTCAGAATATGAATTCCCAGTATGTTGTAGAGTCAGCTTCTAAGCTCTAA
TTCGTGCGCAAAATTTGGAAACCTTATACATTTTAAAGTTTTATCTAATTACCTTTTCTTTTTA
CCGAAGGTTTTATCTAACTATCTTGAGAGCTAACATGTTTATTTCAAATTATCAGTTTGAATCT
GGCTAAGGCTGTGTTCTTTGCCTCAAGTTTGAGAGACATTTTTAGCGCACGCGAAACGAGAAAG
CTCATTAACACATGATTAATTAAGTATTGATAATTATAAACTTAAAAAATGGATTTATTTGAAT
TTTTAAAACAACTTCTATATAGATTTTTTTTAAAAAAAGTATCATTTAACAGTTTGAAAAGCGT
GCTAACGGAAAATGAGGAAGTTGAAATTTGGAGTTGAAGAAAAGAACTAGGCCTAAATCAATAA
ACTATTGGTCATTGGGGTGCATATATTATTATTTATTCTTTTCCATTTTTATTTTTCCAAGTTA
TTGTTTACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAAT
GGATCTCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCT
						
					

			
		

Sequences
Splice junction sequence	TACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAATGGATC TCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCTagatttgagatcaaacaacttgtcagga tcaattgaccttcagcagtacgatagtagcctaaagtacctgtaagttggattcttcgtgaaat atgatttg
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: 135 Transcript exons: 3413682-3413750,3415001-3415066 AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG TACCTTTATGTAGGTGAAAACAATTTCAATGGATCTCTGCCTGATCAAATGCCTCAATCACTAG TTGCTCT Transcript length: 1385 Transcript exons: 3413682-3415066 AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG TACCTGTAAGTTGGATTCTTCGTGAAATATGATTTGTTAAATAAGAAAATTAATTTCGGATGAG ATGCTTGCGTTAGGGAACTTGGTAGTGCTTGCAAGTTCAAGTTAAAACCCATTGTACATGTTGA CCAGGTCGCTCAACAGCTTTTCTTTACATGTATCTTGGGATATGACCTTTCAGTCAGTAATGAC ATAGACAAGCGACATCTTTAAACTATCATGTTGTCTTTAAACTATTAAGGATGGATGGCGAAAT TAATGTATCTTTGCTGTCCGAGTTTCCTCATTGCTATCCTTGCCAAAAAGGAAAGTCTTCGTTT TCTAGAGACCTTGCTTGGTTGCATTTGTGCCAGGGTTTGCCTGTCTACTCGTCTGGCTTGGAAT ATCTACTTCAATATCTGATTTATCATCACTAACTATGTAATTTTAATGTCCAAACAATAGTAAG AGGCCTTCAGGGGCACGAGAAGATGACAATACTGCCACCAGGGATGAACCTGCCTCAAAGAATA TGATGTGTTTCACAATGCTGTGATTAATCCGTCATCTGAACACGTCACTTCTGAAATTCTTGCA GTGCCATACTTTTGTTCAACTGTAGGATTGTGTTCTGGGGAAGCTATTGTTTCTAATTGAGAGC TGAAATCATGCTATACTTACGAATATTTTCAGTCTTCCACCAGCACTTCAGGAATTTGTAATTG ACCATGCTATACTTTTCAGAATATGAATTCCCAGTATGTTGTAGAGTCAGCTTCTAAGCTCTAA TTCGTGCGCAAAATTTGGAAACCTTATACATTTTAAAGTTTTATCTAATTACCTTTTCTTTTTA CCGAAGGTTTTATCTAACTATCTTGAGAGCTAACATGTTTATTTCAAATTATCAGTTTGAATCT GGCTAAGGCTGTGTTCTTTGCCTCAAGTTTGAGAGACATTTTTAGCGCACGCGAAACGAGAAAG CTCATTAACACATGATTAATTAAGTATTGATAATTATAAACTTAAAAAATGGATTTATTTGAAT TTTTAAAACAACTTCTATATAGATTTTTTTTAAAAAAAGTATCATTTAACAGTTTGAAAAGCGT GCTAACGGAAAATGAGGAAGTTGAAATTTGGAGTTGAAGAAAAGAACTAGGCCTAAATCAATAA ACTATTGGTCATTGGGGTGCATATATTATTATTTATTCTTTTCCATTTTTATTTTTCCAAGTTA TTGTTTACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAAT GGATCTCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCT
Genomic sequence	AGATTTGAGATCAAACAACTTGTCAGGATCAATTGACCTTCAGCAGTACGATAGTAGCCTAAAG TACCTGTAAGTTGGATTCTTCGTGAAATATGATTTGTTAAATAAGAAAATTAATTTCGGATGAG ATGCTTGCGTTAGGGAACTTGGTAGTGCTTGCAAGTTCAAGTTAAAACCCATTGTACATGTTGA CCAGGTCGCTCAACAGCTTTTCTTTACATGTATCTTGGGATATGACCTTTCAGTCAGTAATGAC ATAGACAAGCGACATCTTTAAACTATCATGTTGTCTTTAAACTATTAAGGATGGATGGCGAAAT TAATGTATCTTTGCTGTCCGAGTTTCCTCATTGCTATCCTTGCCAAAAAGGAAAGTCTTCGTTT TCTAGAGACCTTGCTTGGTTGCATTTGTGCCAGGGTTTGCCTGTCTACTCGTCTGGCTTGGAAT ATCTACTTCAATATCTGATTTATCATCACTAACTATGTAATTTTAATGTCCAAACAATAGTAAG AGGCCTTCAGGGGCACGAGAAGATGACAATACTGCCACCAGGGATGAACCTGCCTCAAAGAATA TGATGTGTTTCACAATGCTGTGATTAATCCGTCATCTGAACACGTCACTTCTGAAATTCTTGCA GTGCCATACTTTTGTTCAACTGTAGGATTGTGTTCTGGGGAAGCTATTGTTTCTAATTGAGAGC TGAAATCATGCTATACTTACGAATATTTTCAGTCTTCCACCAGCACTTCAGGAATTTGTAATTG ACCATGCTATACTTTTCAGAATATGAATTCCCAGTATGTTGTAGAGTCAGCTTCTAAGCTCTAA TTCGTGCGCAAAATTTGGAAACCTTATACATTTTAAAGTTTTATCTAATTACCTTTTCTTTTTA CCGAAGGTTTTATCTAACTATCTTGAGAGCTAACATGTTTATTTCAAATTATCAGTTTGAATCT GGCTAAGGCTGTGTTCTTTGCCTCAAGTTTGAGAGACATTTTTAGCGCACGCGAAACGAGAAAG CTCATTAACACATGATTAATTAAGTATTGATAATTATAAACTTAAAAAATGGATTTATTTGAAT TTTTAAAACAACTTCTATATAGATTTTTTTTAAAAAAAGTATCATTTAACAGTTTGAAAAGCGT GCTAACGGAAAATGAGGAAGTTGAAATTTGGAGTTGAAGAAAAGAACTAGGCCTAAATCAATAA ACTATTGGTCATTGGGGTGCATATATTATTATTTATTCTTTTCCATTTTTATTTTTCCAAGTTA TTGTTTACCCTGCCTTTCTGATGATTTTTTATTTGTTAGTTATGTAGGTGAAAACAATTTCAAT GGATCTCTGCCTGATCAAATGCCTCAATCACTAGTTGCTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.208289182

Conservation Information
Conserved circRNAs	NA
PMCS	0.208289182

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3415045-3415063(+)
						
						Potential amino acid sequence
						
							MPQSLVALDLRSNNLSGSIDLQQYDSSLKYLYVGENNFNGSLPDQMPQSLVALDLRSNNLSGSI
DLQQYDSSLKYLYVGENNFNGSLPDQMPQSLVALDLRSNNLSGSIDLQQYDSSLKYLYVGENNF
NGSLPDQMPQSLVA(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3415045-3415063(+)
Potential amino acid sequence	MPQSLVALDLRSNNLSGSIDLQQYDSSLKYLYVGENNFNGSLPDQMPQSLVALDLRSNNLSGSI DLQQYDSSLKYLYVGENNFNGSLPDQMPQSLVALDLRSNNLSGSIDLQQYDSSLKYLYVGENNF NGSLPDQMPQSLVA(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0167500_circ_g.2

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