Plant Circular RNA Database

Detail information of Os12g0236900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0236900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010931
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 7548176-7551263  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0236900						
					
						Parent gene annotation
						
							SET domain containing protein. (Os12t0236900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0236900_circ_g.2 						
					
						Support reads
						1
					
						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
						Os12t0237000-00:9
Os12t0236900-01:10
Os12t0237000-00:9

General Information
CircRNA Name	Os12g0236900_circ_g.1
ID in PlantcircBase	osa_circ_010931
Alias	NA
Organism	Oryza sativa
Position	chr12: 7548176-7551263 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0236900
Parent gene annotation	SET domain containing protein. (Os12t0236900-01)
Parent gene strand	+
Alternative splicing	Os12g0236900_circ_g.2
Support reads	1
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	Os12t0237000-00:9 Os12t0236900-01:10 Os12t0237000-00:9

			
						 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  
						
							GAAAAGTAAAGCATGCAGCGAGCATTAATTCTTGCAACATGGGTGTCACTTCTAATGGTGTTCT
CATTAATGATCACATCCAGTTGAAGTGCATTAGAAGctgaattgctaacaacaaacaaattatc
tgagctggcatgcttggctttgtatctcatgtatgagaaaaagcaaggacaagattcattttgg
tatcctta

									
								

					

						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
						
							CTGAATTGCTAACAACAAACAAATTATCTGAGCTGGCATGCTTGGCTTTGTATCTCATGTATGA
GAAAAAGCAAGGACAAGATTCATTTTGGTATCCTTACATTAAGGAGCTTGATCGCCAGCGAGGA
AGGGGGCAATTAGCTGTTGAATCTCCACTTCTGTGGACCGAAAGTGAACTGAACTACCTGAAGG
GTAGCCCCATCAAGGTTAGTGTTTTTTCCTATCCACTATATGTCAATATATTATGAGCACATTT
TATGCAGTGTCAAGTAATATACAACTTAGATTTTCTAATATTTCAGGATGAAGTTGTTGCAAGA
GACGAGGGAATAAGGCGAGAGTATAATGAGCTCGACACACTGTGGTTCATGGCAGGTTCATTGT
TTCAGGTGCTTTCTTTTGACCTTCCAAAATGTTCCTGTCTCTGGGATTCTGTTGCACTAGCTGC
TTGTTGTTCTCATGTCAACTGTTATGCAGCAATATCCTTTTGACATACCTACCGAGGCTTTTCC
ATTTGAGATCTTCAAGCAAGCTTTTGTCGCAGTACAGTCTTGCGTGGTCCATTTGCAGGTAACA
TAATGAGCAATGAGATTTCATTTATCAAAAAAATTAGATATTACCCCGATTGGTTGTTGGTTGG
TTTAAATAATTATCTCTGGTGTTGAACTGAAGTTTAAGATTTACTTAGAGTGTACACCATTTAT
GAACAGAACAGTTTAGTGCTAAATACCTTGCCCATATAATAGATTATACAAGCCTCGCAGTATT
TTTGTCAAATTCAATAAATTTGGAAATTTGCTTCTTCAAATTATGTAGATTTGTTCTGTAAGTA
TTTTTTTTTGTTTCATATGTTTTATTTGCTTAATACTTCAGTTTGGGATCAACAGTTCATAGCA
TGCCAGCCTTTTATTTTATTACTGGATAAATACTGAACCTGCTCGTCGCTAAGTTATTTTTATT
TTTCATTGAAGAACAGAAAGTTAGTTTAGCTCGAAGATTTGCGCTAGTTCCATTGGGCCCACCA
CTATTGACCTACAAGAGCAACTGCAAAGCAATGCTGACAGCTGTTGGTGATTCTGTTCGGTTGG
TTGTGGATCGACCATACAAAGCGGGAGAACCAATAATCGTCTGGTATAATATTTTCTTCAGATG
CATTAAAATTCTTGTTGTACCTCATCATATTTGGCAACTTCAGTGCTTATTTACTGTTTGCATA
TTTCATTTCTGTTGTTTGTGCATCTCCACTGTAACGTCAAGCTATGCAAATTGTACAGGTGTGG
GCCACAGCCTAACTCTAGATTGCTCCTCAACTACGGTTTTATTGACGAAGATAATCCATATGAT
CGTATAGTGATTGAGGTGGAATTTGTTTTGCTATTGTTCTACATTCATCTTCTTATTGGATTTG
TGTAAGCAATACTGAATCATTGTTACAGGCATCCCTAAACATAGAAGATCCTCAGTTCCAAGAG
AAGAGAATGGTTGCTCAAAGAAATGGGAAGCTGGCTATCCAAAATTTCCATGTGGGAACTATGA
TTTCCTTTTTCTTTTCCATTTGGAATGCAACTACAAATGTTGTATATTGACATGCCTTAGGTGC
ATTAGGTCTGTGTGGGTAAAGAGAAGGAAACAATTGCAGAAATGCTGCCCTATTTGAGGCTAGG
ATACATTTCAGATCCAGATGAAATGCAATCCATACTTTCTTCAGAAGGTGATACATGTCCAGTA
AGTCTACTTGCCCTTAATTGGCCTTACTATTAGAATTTTCAGAATTTTCAGTTACGGTTAGAAT
TTTTAATTACACATATGAGATAAAATGGAGCAGGGCAAGGTGACAGTGTCGTACATTGTTGTTT
TATTTATTACATTTTTGGGGTCATTATGCTTGCGCAGTTAGCCAGTTTATAGTTTCTGCCTTTT
TTCTTTACAAGACTCCAAAAGCACTTTCCAATGGGCTCAGTTTTTATGGGGCTTCTGCCTTTAA
ATATTGCTTCAAGCCTTGAAGACCCAGAAGTATTGATCTAGTGTCATTAGTCATTACTATGTTT
GTAACAAATTGAAGCTAGACAAACAGGCATTTGATCTGAAGATCTTGTGTTATGTGAAATGCAA
TAATTACATCTGGTTGAACATTTAGGAAGAGAGAACATTTCACAAGTAGATAATTTGGAAAATG
CCTTTACATTTGAAGCTTTCTTTTAGGCCATCACATTTGTCATTCCAGGTTTTTAGGATTTCAT
TCAAGTTATAAGTTCATCTAACCCATTATTTATTTTTAGTCGGGTTGATCTAAGGTGCAGATTG
TTCAAAACTAAACCGGCTTGCTACAAAGCAAATCCATCATACATTTAAAGTGCAATATTTTGCC
ATGCAAATATCCCACAGTAGCATGTAGGGTTTCCATTGAGTTTTTATGGAAGTTGAGCAATGGT
TCTAAATAGACTATGTGGTAATAGTAGTGTTATGCATAACACTGTGTAAATTGTGACATGTTTC
CAACTATGATTATAGGTCAGTCCATGCACAGAGCGAGCAGTACTTGACCAACTTGTTGGATACT
TGGAGTCACGATTGGCTGATTATCCAACAACTTTGGATGAGGATGATGCTATGGTAACGAGTTG
CAAAGCACTATGTGTATGTTTTTTTGTAAAATCTCTGATACGTAATGTAATGAAGAGCATTTCA
TTTCTCTGGTATTGGGCAGTTGGCAGATGGCAATTTGGAACCAAAAAAGGAAGTCGCTACTAGG
CTTGTAAGATTGGAGAAGAAATTGTTGCATGGTTGTCTCCAGGCTGCTAATGAGTTCATAAATG
ATTTGCCTGACCACACTGTGTCACCTTGCCCTGCTCCATTTGCTCCTGAATTGAAATAAGGTAG
GCAAAGCTCAATAAGTTTTCACTGCTTCCCAAAGTAAATTTATTAGACCGTTTACTGTGTACCA
TGTTGATGTAATTGATCTAATAGACTGAATTTTATGGATGTGCAGAAAAGTAAAGCATGCAGCG
AGCATTAATTCTTGCAACATGGGTGTCACTTCTAATGGTGTTCTCATTAATGATCACATCCAGT
TGAAGTGCATTAGAAG
						
					

			
		

Sequences
Splice junction sequence	GAAAAGTAAAGCATGCAGCGAGCATTAATTCTTGCAACATGGGTGTCACTTCTAATGGTGTTCT CATTAATGATCACATCCAGTTGAAGTGCATTAGAAGctgaattgctaacaacaaacaaattatc tgagctggcatgcttggctttgtatctcatgtatgagaaaaagcaaggacaagattcattttgg tatcctta
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	CTGAATTGCTAACAACAAACAAATTATCTGAGCTGGCATGCTTGGCTTTGTATCTCATGTATGA GAAAAAGCAAGGACAAGATTCATTTTGGTATCCTTACATTAAGGAGCTTGATCGCCAGCGAGGA AGGGGGCAATTAGCTGTTGAATCTCCACTTCTGTGGACCGAAAGTGAACTGAACTACCTGAAGG GTAGCCCCATCAAGGTTAGTGTTTTTTCCTATCCACTATATGTCAATATATTATGAGCACATTT TATGCAGTGTCAAGTAATATACAACTTAGATTTTCTAATATTTCAGGATGAAGTTGTTGCAAGA GACGAGGGAATAAGGCGAGAGTATAATGAGCTCGACACACTGTGGTTCATGGCAGGTTCATTGT TTCAGGTGCTTTCTTTTGACCTTCCAAAATGTTCCTGTCTCTGGGATTCTGTTGCACTAGCTGC TTGTTGTTCTCATGTCAACTGTTATGCAGCAATATCCTTTTGACATACCTACCGAGGCTTTTCC ATTTGAGATCTTCAAGCAAGCTTTTGTCGCAGTACAGTCTTGCGTGGTCCATTTGCAGGTAACA TAATGAGCAATGAGATTTCATTTATCAAAAAAATTAGATATTACCCCGATTGGTTGTTGGTTGG TTTAAATAATTATCTCTGGTGTTGAACTGAAGTTTAAGATTTACTTAGAGTGTACACCATTTAT GAACAGAACAGTTTAGTGCTAAATACCTTGCCCATATAATAGATTATACAAGCCTCGCAGTATT TTTGTCAAATTCAATAAATTTGGAAATTTGCTTCTTCAAATTATGTAGATTTGTTCTGTAAGTA TTTTTTTTTGTTTCATATGTTTTATTTGCTTAATACTTCAGTTTGGGATCAACAGTTCATAGCA TGCCAGCCTTTTATTTTATTACTGGATAAATACTGAACCTGCTCGTCGCTAAGTTATTTTTATT TTTCATTGAAGAACAGAAAGTTAGTTTAGCTCGAAGATTTGCGCTAGTTCCATTGGGCCCACCA CTATTGACCTACAAGAGCAACTGCAAAGCAATGCTGACAGCTGTTGGTGATTCTGTTCGGTTGG TTGTGGATCGACCATACAAAGCGGGAGAACCAATAATCGTCTGGTATAATATTTTCTTCAGATG CATTAAAATTCTTGTTGTACCTCATCATATTTGGCAACTTCAGTGCTTATTTACTGTTTGCATA TTTCATTTCTGTTGTTTGTGCATCTCCACTGTAACGTCAAGCTATGCAAATTGTACAGGTGTGG GCCACAGCCTAACTCTAGATTGCTCCTCAACTACGGTTTTATTGACGAAGATAATCCATATGAT CGTATAGTGATTGAGGTGGAATTTGTTTTGCTATTGTTCTACATTCATCTTCTTATTGGATTTG TGTAAGCAATACTGAATCATTGTTACAGGCATCCCTAAACATAGAAGATCCTCAGTTCCAAGAG AAGAGAATGGTTGCTCAAAGAAATGGGAAGCTGGCTATCCAAAATTTCCATGTGGGAACTATGA TTTCCTTTTTCTTTTCCATTTGGAATGCAACTACAAATGTTGTATATTGACATGCCTTAGGTGC ATTAGGTCTGTGTGGGTAAAGAGAAGGAAACAATTGCAGAAATGCTGCCCTATTTGAGGCTAGG ATACATTTCAGATCCAGATGAAATGCAATCCATACTTTCTTCAGAAGGTGATACATGTCCAGTA AGTCTACTTGCCCTTAATTGGCCTTACTATTAGAATTTTCAGAATTTTCAGTTACGGTTAGAAT TTTTAATTACACATATGAGATAAAATGGAGCAGGGCAAGGTGACAGTGTCGTACATTGTTGTTT TATTTATTACATTTTTGGGGTCATTATGCTTGCGCAGTTAGCCAGTTTATAGTTTCTGCCTTTT TTCTTTACAAGACTCCAAAAGCACTTTCCAATGGGCTCAGTTTTTATGGGGCTTCTGCCTTTAA ATATTGCTTCAAGCCTTGAAGACCCAGAAGTATTGATCTAGTGTCATTAGTCATTACTATGTTT GTAACAAATTGAAGCTAGACAAACAGGCATTTGATCTGAAGATCTTGTGTTATGTGAAATGCAA TAATTACATCTGGTTGAACATTTAGGAAGAGAGAACATTTCACAAGTAGATAATTTGGAAAATG CCTTTACATTTGAAGCTTTCTTTTAGGCCATCACATTTGTCATTCCAGGTTTTTAGGATTTCAT TCAAGTTATAAGTTCATCTAACCCATTATTTATTTTTAGTCGGGTTGATCTAAGGTGCAGATTG TTCAAAACTAAACCGGCTTGCTACAAAGCAAATCCATCATACATTTAAAGTGCAATATTTTGCC ATGCAAATATCCCACAGTAGCATGTAGGGTTTCCATTGAGTTTTTATGGAAGTTGAGCAATGGT TCTAAATAGACTATGTGGTAATAGTAGTGTTATGCATAACACTGTGTAAATTGTGACATGTTTC CAACTATGATTATAGGTCAGTCCATGCACAGAGCGAGCAGTACTTGACCAACTTGTTGGATACT TGGAGTCACGATTGGCTGATTATCCAACAACTTTGGATGAGGATGATGCTATGGTAACGAGTTG CAAAGCACTATGTGTATGTTTTTTTGTAAAATCTCTGATACGTAATGTAATGAAGAGCATTTCA TTTCTCTGGTATTGGGCAGTTGGCAGATGGCAATTTGGAACCAAAAAAGGAAGTCGCTACTAGG CTTGTAAGATTGGAGAAGAAATTGTTGCATGGTTGTCTCCAGGCTGCTAATGAGTTCATAAATG ATTTGCCTGACCACACTGTGTCACCTTGCCCTGCTCCATTTGCTCCTGAATTGAAATAAGGTAG GCAAAGCTCAATAAGTTTTCACTGCTTCCCAAAGTAAATTTATTAGACCGTTTACTGTGTACCA TGTTGATGTAATTGATCTAATAGACTGAATTTTATGGATGTGCAGAAAAGTAAAGCATGCAGCG AGCATTAATTCTTGCAACATGGGTGTCACTTCTAATGGTGTTCTCATTAATGATCACATCCAGT TGAAGTGCATTAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010303 						
					
						PMCS
						0.131434572

Conservation Information
Conserved circRNAs	osi_circ_010303
PMCS	0.131434572

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7551203-7548176(+)
7548216-7551239(-)
7548235-7550757(-)
						
						Potential amino acid sequence
						
							MGVTSNGVLINDHIQLKCIRS*(+)
MPAQIICLLLAIQLLMHFNWM*(-)
MRYKAKHASSDNLFVVSNSASNALQLDVIINENTIRSDTHVARINARCMLYFSYFNSGANGAGQ
GDTVWSGKSFMNSLAAWRQPCNNFFSNLTSLVATSFFGSKLPSANIASSSSKVVG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7551203-7548176(+) 7548216-7551239(-) 7548235-7550757(-)
Potential amino acid sequence	MGVTSNGVLINDHIQLKCIRS(+) MPAQIICLLLAIQLLMHFNWM(-) MRYKAKHASSDNLFVVSNSASNALQLDVIINENTIRSDTHVARINARCMLYFSYFNSGANGAGQ GDTVWSGKSFMNSLAAWRQPCNNFFSNLTSLVATSFFGSKLPSANIASSSSKVVG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0236900_circ_g.1

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