Plant Circular RNA Database

Detail information of Os06g0196900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0196900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_030079
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 4934519-4936720  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os06g0196900						
					
						Parent gene annotation
						
							Similar to Chaperonin. (Os06t0196900-01);Similar to 20 kDa chape
ronin, chloroplast precursor (Protein Cpn21) (Chloroplast protei
n Cpn10) (Chloroplast chaperonin 10) (Ch-CPN10) (Chaperonin 20).
 (Os06t0196900-02);Similar to Chaperonin. (Os06t0196900-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0196900_circ_g.2 Os06g0196900_circ_ag.1 Os06g0196900_circ_ag.2 Os06g0196900_circ_ag.3 						
					
						Support reads
						44
					
						Tissues
						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
						Os06t0196900-03:4
Os06t0196900-02:4
Os06t0196900-01:2

General Information
CircRNA Name	Os06g0196900_circ_g.1
ID in PlantcircBase	osa_circ_030079
Alias	NA
Organism	Oryza sativa
Position	chr6: 4934519-4936720 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os06g0196900
Parent gene annotation	Similar to Chaperonin. (Os06t0196900-01);Similar to 20 kDa chape ronin, chloroplast precursor (Protein Cpn21) (Chloroplast protei n Cpn10) (Chloroplast chaperonin 10) (Ch-CPN10) (Chaperonin 20). (Os06t0196900-02);Similar to Chaperonin. (Os06t0196900-03)
Parent gene strand	+
Alternative splicing	Os06g0196900_circ_g.2 Os06g0196900_circ_ag.1 Os06g0196900_circ_ag.2 Os06g0196900_circ_ag.3
Support reads	44
Tissues	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	Os06t0196900-03:4 Os06t0196900-02:4 Os06t0196900-01:2

			
						 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  
						
							CCTGCTTTTGTAAATTTGACAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTC
ACTGAAACCACTAAGGAGAAGCCATCAATCGGAACAttagctttccagccagcaatcgaggatg
tcgtcggtgcagctctccggtgccggagtcgccgcggtggccttcaccaagaatggcgcgtctt
ccttcgac

									
								

					

						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: 610
Transcript exons: 4934519-4934714,4934815-4934994,4936328-4936483,4936643-
4936720
TTAGCTTTCCAGCCAGCAATCGAGGATGTCGTCGGTGCAGCTCTCCGGTGCCGGAGTCGCCGCG
GTGGCCTTCACCAAGAATGGCGCGTCTTCCTTCGACGGGCTCCGCCTCGCGCCGCCATCTGTGC
GAGTCTGCTCCTCCAGGCGCCCGTCTCGTAGCCTCGTCGTCAAGGCCGCCACGGTCGTCACCCC
AAAGTATACCTCGCTCAAGCCTCTGGGAGACAGAGTGCTTGTGAAGCTTGGTGCTGCAGAGGAG
AAGACTGTTGGTGGGATTCTGCTTCCGTCAACCGCACAGTCTAAGCCTCAGGGAGGTGAGGTTG
TTGCTGTTGGAGAGGGAAGAACTATTGGGGATAAGAAAGTTGAGGTCAGCTTGCAGATTGGGGC
TGAAGTTGTATATTCAAAATATGCTGGGACTGAGGTGCAATTTAACGACACCAAACATCTTATT
CTAAAAGAGGATGATATCATTGGTGTTCTTGAGACTGATGATGTCAAAGATATGAAGCCCCTTA
ATGACCGGGTTCTCATCAAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTCAC
TGAAACCACTAAGGAGAAGCCATCAATCGGAACA
						
					

						Genomic sequence
						
							TTAGCTTTCCAGCCAGCAATCGAGGATGTCGTCGGTGCAGCTCTCCGGTGCCGGAGTCGCCGCG
GTGGCCTTCACCAAGAATGGCGCGTCTTCCTTCGACGGGCTCCGCCTCGCGCCGCCATCTGTGC
GAGTCTGCTCCTCCAGGCGCCCGTCTCGTAGCCTCGTCGTCAAGGCCGCCACGGTCGTCACCCC
AAAGGTATACAGAGGTGTTAAGCTTCCCAATTATCTGTAGATTATGGCGAGCTTGGTTATGGTT
AGCATGAGTGAGTTAACGAATTTCGTTGTTCGCATGGCAGTATACCTCGCTCAAGCCTCTGGGA
GACAGAGTGCTTGTGAAGCTTGGTGCTGCAGAGGAGAAGACTGTTGGTGGGATTCTGCTTCCGT
CAACCGCACAGTCTAAGCCTCAGGGAGGTGAGGTTGTTGCTGTTGGAGAGGGAAGAACTATTGG
GGATAAGAAAGTTGAGGTCAGCTTGCAGGTAAAGTTCTTCTCACAATGAGATTGCAAGTGTACC
TGTATGATGTCTAGTACTACATTTCTTACCCCATAGCTCGGTTGTGAGTTGCAAGTAGCAGTGA
CACGGCAATTTACTTGTTGGTTGTTGCCAACTAAATTTAAAAGCATATTGTGTGTGATGCCTTA
TCAAGAATGCGATGTTAATGGTGTACGGGGTCTGTGAGGCTGAAGTTTCTATGGCACAAAACTC
ATGTGAAACCAACAGAGGTTTCTCATGATTGCTTTATGACTGTTGTTCAGAGTATGCAACACTG
ATATATTTTGATTGTTAGTTTCTGGTTTGGTTAAACATATGAATCCACGTAAGGAGTATCCTTT
GGCAATGGGCAAATATGTATGAGCATTTGCTTAATTTTGTCATCCATACAAATAGATGTTGTTA
GTCTTTCATAGCACTAGGAGAGTAGGAGGTGGTGCATATGACCCGGGTTTGAGAAACAACAGAA
AACCGGGAAAAAAGAATCGCTCAACCCTTTTTTTTTAAAGGACTGGTTCACTCCCTCATGTTGG
TATTACTAGCAACTTCCATGGAGAACATTTATTTAGTTAGTGCCTGGTTTACAAGTCCAAACCC
ATGATGTTTTGGCATCTCCATCCCTCAACTAGATTCACTAATGTACATATGAATTTGGACACAT
ATATGAAGCACATACATGAATCTATTCAAAACTCAAAACGTCTTATAATGTGAAACAAAGAAAG
TAACTAGGTAAAGCGGCTTCTGAGGTAATGCTGTGTGACTTGTTTGTTTATAGTTATCTTGTTG
AACAGGGTACAATTTGTTCTGACTGATGGGCGAAAAAGGCTTTCAATCTCTGTTTTTTTTTCTT
AGATGCACCTTGCAACTTTATCTTGGTTCCTGCATGACAATAATTGTTTGGGTTCATCATCTTG
TCTACTGGAAATGTCTCTAAGATAAGGTTTAGATTGGTGAAAAATTTACTGATAGTGATGCTTG
TTACAGGACCTTAGATTGGTGAAAAATTTACTGATAGTGACTCTTGTTACAGGACCTTGGTTAT
TTTCATTTGTTGTGTAACTAGTTTTCACTTAACTTGAATTTCTGCAAGGAGATACTACATTAGT
AAACTTAATTTAGACAATCATAGCGATTGGCACTACAGAGAGCCTACTGTTGAATTTCAGTGCA
GCAATTGTGCTATATATTACCTGATGAACTTGGTGCAATAAGATGTTAAAGTGCCAATCTGCCA
ATTTGTTCTGTTGCTTTTATGTTGTGGTTTACTGCTTATGCCTTCTAATGGCAGTATTAAGTGA
TTTATATTGTTCTGTAGATTGGGGCTGAAGTTGTATATTCAAAATATGCTGGGACTGAGGTGCA
ATTTAACGACACCAAACATCTTATTCTAAAAGAGGATGATATCATTGGTGTTCTTGAGACTGAT
GATGTCAAAGATATGAAGCCCCTTAATGACCGGGTTCTCATCAAGGTATCCATATGTTATTGTT
ATTGCTTCTTAAGATAGTTGCCAGTAGGGTTATGGTTTATAGGTAATGAAATTGGAGAATGTTG
AATAAATTGTACATCTTGCCGTTGTACTTCCTAGACAACCTTTGGTAATGATTCCCTGCTTTTG
TAAATTTGACAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTCACTGAAACCA
CTAAGGAGAAGCCATCAATCGGAACA
						
					

			
		

Sequences
Splice junction sequence	CCTGCTTTTGTAAATTTGACAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTC ACTGAAACCACTAAGGAGAAGCCATCAATCGGAACAttagctttccagccagcaatcgaggatg tcgtcggtgcagctctccggtgccggagtcgccgcggtggccttcaccaagaatggcgcgtctt ccttcgac
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: 610 Transcript exons: 4934519-4934714,4934815-4934994,4936328-4936483,4936643- 4936720 TTAGCTTTCCAGCCAGCAATCGAGGATGTCGTCGGTGCAGCTCTCCGGTGCCGGAGTCGCCGCG GTGGCCTTCACCAAGAATGGCGCGTCTTCCTTCGACGGGCTCCGCCTCGCGCCGCCATCTGTGC GAGTCTGCTCCTCCAGGCGCCCGTCTCGTAGCCTCGTCGTCAAGGCCGCCACGGTCGTCACCCC AAAGTATACCTCGCTCAAGCCTCTGGGAGACAGAGTGCTTGTGAAGCTTGGTGCTGCAGAGGAG AAGACTGTTGGTGGGATTCTGCTTCCGTCAACCGCACAGTCTAAGCCTCAGGGAGGTGAGGTTG TTGCTGTTGGAGAGGGAAGAACTATTGGGGATAAGAAAGTTGAGGTCAGCTTGCAGATTGGGGC TGAAGTTGTATATTCAAAATATGCTGGGACTGAGGTGCAATTTAACGACACCAAACATCTTATT CTAAAAGAGGATGATATCATTGGTGTTCTTGAGACTGATGATGTCAAAGATATGAAGCCCCTTA ATGACCGGGTTCTCATCAAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTCAC TGAAACCACTAAGGAGAAGCCATCAATCGGAACA
Genomic sequence	TTAGCTTTCCAGCCAGCAATCGAGGATGTCGTCGGTGCAGCTCTCCGGTGCCGGAGTCGCCGCG GTGGCCTTCACCAAGAATGGCGCGTCTTCCTTCGACGGGCTCCGCCTCGCGCCGCCATCTGTGC GAGTCTGCTCCTCCAGGCGCCCGTCTCGTAGCCTCGTCGTCAAGGCCGCCACGGTCGTCACCCC AAAGGTATACAGAGGTGTTAAGCTTCCCAATTATCTGTAGATTATGGCGAGCTTGGTTATGGTT AGCATGAGTGAGTTAACGAATTTCGTTGTTCGCATGGCAGTATACCTCGCTCAAGCCTCTGGGA GACAGAGTGCTTGTGAAGCTTGGTGCTGCAGAGGAGAAGACTGTTGGTGGGATTCTGCTTCCGT CAACCGCACAGTCTAAGCCTCAGGGAGGTGAGGTTGTTGCTGTTGGAGAGGGAAGAACTATTGG GGATAAGAAAGTTGAGGTCAGCTTGCAGGTAAAGTTCTTCTCACAATGAGATTGCAAGTGTACC TGTATGATGTCTAGTACTACATTTCTTACCCCATAGCTCGGTTGTGAGTTGCAAGTAGCAGTGA CACGGCAATTTACTTGTTGGTTGTTGCCAACTAAATTTAAAAGCATATTGTGTGTGATGCCTTA TCAAGAATGCGATGTTAATGGTGTACGGGGTCTGTGAGGCTGAAGTTTCTATGGCACAAAACTC ATGTGAAACCAACAGAGGTTTCTCATGATTGCTTTATGACTGTTGTTCAGAGTATGCAACACTG ATATATTTTGATTGTTAGTTTCTGGTTTGGTTAAACATATGAATCCACGTAAGGAGTATCCTTT GGCAATGGGCAAATATGTATGAGCATTTGCTTAATTTTGTCATCCATACAAATAGATGTTGTTA GTCTTTCATAGCACTAGGAGAGTAGGAGGTGGTGCATATGACCCGGGTTTGAGAAACAACAGAA AACCGGGAAAAAAGAATCGCTCAACCCTTTTTTTTTAAAGGACTGGTTCACTCCCTCATGTTGG TATTACTAGCAACTTCCATGGAGAACATTTATTTAGTTAGTGCCTGGTTTACAAGTCCAAACCC ATGATGTTTTGGCATCTCCATCCCTCAACTAGATTCACTAATGTACATATGAATTTGGACACAT ATATGAAGCACATACATGAATCTATTCAAAACTCAAAACGTCTTATAATGTGAAACAAAGAAAG TAACTAGGTAAAGCGGCTTCTGAGGTAATGCTGTGTGACTTGTTTGTTTATAGTTATCTTGTTG AACAGGGTACAATTTGTTCTGACTGATGGGCGAAAAAGGCTTTCAATCTCTGTTTTTTTTTCTT AGATGCACCTTGCAACTTTATCTTGGTTCCTGCATGACAATAATTGTTTGGGTTCATCATCTTG TCTACTGGAAATGTCTCTAAGATAAGGTTTAGATTGGTGAAAAATTTACTGATAGTGATGCTTG TTACAGGACCTTAGATTGGTGAAAAATTTACTGATAGTGACTCTTGTTACAGGACCTTGGTTAT TTTCATTTGTTGTGTAACTAGTTTTCACTTAACTTGAATTTCTGCAAGGAGATACTACATTAGT AAACTTAATTTAGACAATCATAGCGATTGGCACTACAGAGAGCCTACTGTTGAATTTCAGTGCA GCAATTGTGCTATATATTACCTGATGAACTTGGTGCAATAAGATGTTAAAGTGCCAATCTGCCA ATTTGTTCTGTTGCTTTTATGTTGTGGTTTACTGCTTATGCCTTCTAATGGCAGTATTAAGTGA TTTATATTGTTCTGTAGATTGGGGCTGAAGTTGTATATTCAAAATATGCTGGGACTGAGGTGCA ATTTAACGACACCAAACATCTTATTCTAAAAGAGGATGATATCATTGGTGTTCTTGAGACTGAT GATGTCAAAGATATGAAGCCCCTTAATGACCGGGTTCTCATCAAGGTATCCATATGTTATTGTT ATTGCTTCTTAAGATAGTTGCCAGTAGGGTTATGGTTTATAGGTAATGAAATTGGAGAATGTTG AATAAATTGTACATCTTGCCGTTGTACTTCCTAGACAACCTTTGGTAATGATTCCCTGCTTTTG TAAATTTGACAGGTTGCTGAGGCTGAAGACAAAACTGCTGGTGGCCTTATTCTCACTGAAACCA CTAAGGAGAAGCCATCAATCGGAACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006582* osi_circ_016758 osi_circ_006583* 						
					
						PMCS
						0.228413355

Conservation Information
Conserved circRNAs	osi_circ_006582* osi_circ_016758 osi_circ_006583*
PMCS	0.228413355

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4934545-4934674(+)
4936465-4934519(+)
						
						Potential amino acid sequence
						
							MSSVQLSGAGVAAVAFTKNGASSFDGLRLAPPSVRVCSSRRPSRSLVVKAATVVTPKYTSLKPL
GDRVLVKLGAAEEKTVGGILLPSTAQSKPQGGEVVAVGEGRTIGDKKVEVSLQIGAEVVYSKYA
GTEVQFNDTKHLILKEDDIIGVLETDDVKDMKPLNDRVLIKVAEAEDKTAGGLILTETTKEKPS
IGTLAFQPAIEDVVGAALRCRSRRGGLHQEWRVFLRRAPPRAAICASLLLQAPVS*(+)
MTGFSSRLLRLKTKLLVALFSLKPLRRSHQSEH*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4934545-4934674(+) 4936465-4934519(+)
Potential amino acid sequence	MSSVQLSGAGVAAVAFTKNGASSFDGLRLAPPSVRVCSSRRPSRSLVVKAATVVTPKYTSLKPL GDRVLVKLGAAEEKTVGGILLPSTAQSKPQGGEVVAVGEGRTIGDKKVEVSLQIGAEVVYSKYA GTEVQFNDTKHLILKEDDIIGVLETDDVKDMKPLNDRVLIKVAEAEDKTAGGLILTETTKEKPS IGTLAFQPAIEDVVGAALRCRSRRGGLHQEWRVFLRRAPPRAAICASLLLQAPVS(+) MTGFSSRLLRLKTKLLVALFSLKPLRRSHQSEH(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0196900_circ_g.1

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