Plant Circular RNA Database

Detail information of Os09g0307800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0307800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038815
					
						Alias
						Os_ciR12019
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 8041805-8044901  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0307800						
					
						Parent gene annotation
						
							SET domain-containing histone methyltransferase, H3 lysine 36 (H
3K36) methylation, Flowering promotion (Os09t0307800-01);Similar
 to histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysi
ne-20specific. (Os09t0307800-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0307800_circ_g.1 						
					
						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  
						
							CT-AC							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
						Os09t0307800-02:5
Os09t0307800-01:5

General Information
CircRNA Name	Os09g0307800_circ_g.2
ID in PlantcircBase	osa_circ_038815
Alias	Os_ciR12019
Organism	Oryza sativa
Position	chr9: 8041805-8044901 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os09g0307800
Parent gene annotation	SET domain-containing histone methyltransferase, H3 lysine 36 (H 3K36) methylation, Flowering promotion (Os09t0307800-01);Similar to histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysi ne-20specific. (Os09t0307800-02)
Parent gene strand	-
Alternative splicing	Os09g0307800_circ_g.1
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	CT-AC 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	Os09t0307800-02:5 Os09t0307800-01:5

			
						 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  
						
							CTTAATTAATTTGGTTTTCCTCAAAGTCCTATGCTGGAACGGTTTGTTAGCACATTTATTCTCA
CATTTACAGGTCGACGAACAACAAGAGAACAACATCatgctgtgacgtcgatgccacaaacgga
caatctccccaatacaattctccaaatatgtctttcttttcttccggacatgctgatcttgtga
cagatttc

									
								

					

						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
						
							ATGCTGTGACGTCGATGCCACAAACGGACAATCTCCCCAATACAATTCTCCAAATATGTCTTTC
TTTTCTTCCGGACATGCTGATCTTGTGACAGATTTCCATTATGAAGTACAATTGAGTTAACAGG
CTTTGTGATGCCAAGCATTTTTCGACAGTTTGAAGATCCACAGTGACAATCTTGATCAGCTCCA
AATTGGACAAACCTGTAGGTAAAGCCGAGAAATTAAATACCAGGAGTAGTTCCATATACAGAAA
ATGATGAATCATTATGCCCGAGTGAAATGAAAAGAAGTCAAGGATAGAACTAGAACAAAAATAC
TTGTAATCATAGGTCAGCTCCTCCCCCGTTTTTATGTCACGAAGAGCAAAAATTCCAACTCTGG
TCTCTCCCTCAACAGTCCTGAAACAATATAAATACTAGTCATATATCAGGGTGATGTTAGAAGA
ACAGCATATATGAATGAGCTGACAAGAGTATAACTTACCATTTCTGCATCTCTGTGTTTGGCTC
ACAGCTATGATTTATGAAGCGCGACATGTTTCCTTTGTTGGTCGCGTCGATCACCATATTACTA
CTGACCTCACAAAGATAGAAATTAGTGTCACCCTGCCTCTTCATTTTCCATAGTCTCTGCTCAC
ATGTTCTGTCATCAATAACTACAATATGTTTGCAAGATATGTGGATATTAGTTTTTAGCTCCAA
GTTATTGTATATTGTAACAGTTTGAAAAAGATTTACTGGAGGATATGATAGCCCTCCAACCCAC
AATCTGGATTCTGGACTTTAGTTTGATTACCAATATGTTCAATGTGAGAACTCATATCAATAGA
TCGAATTATCGATCTATCTATACCTATACTAATCGGACACTCTGAGGAAAATCTCACGTTTAAG
CACAGTAGTGGATAAAAATCTGGTCATTAATCTAGGTGGGACTAAACCATGACGACTTGAATTA
AAAGAAGAGTCCAAGTGAAGTAAGTTACAACTTGCTTTTTAGTAATTTCTAAATCCATAACTAA
ATTAACAGGATAGAAGGTTGAGATTCCAAGACAGATACAATATTTATGAATTCTGAGTTTTGGA
ATTACTAAATATAAAAAAACTCAAATTGCAACTCCAAGACAAGTACAACTTCTATATTAATTCC
AAACTTAGAATTTGTTTCATCAAGAACAAATAAGATTAGAACTACGTACAAACAACAAATTTAT
ACTCCCTGTCCCAAAACATAGCCTTGAACTACAAAGGTAGCTATATTTTGGGACAGAATACGAC
TTACCAAAATTGAATTTTGAGACTTAAACCAGTTACAGCTTTGTATGTAAAGCTTTTATTCATT
ACTTTCGAATCTCAGTACTACAATTCATATCTTGCAAAAAAAAAAATCAAGGACAAACAAAAAT
TAAGACTCCGTGACAAGTAAACCATTGTATATATTAATTCTAATTGTTTAATAATTAAAAATGA
AAAAAATAAAAAGTAAAAAAATAAGTATTACTGTGGATTCGGTATACTCCCTCCATCCCATAAT
ATAAGTGATTTTGGATGGCTGTAACACATCCTAGTACAATGAATCTGGACAGACCGTCTGTCCA
GATTCATTGTACTATGATGTGTCACATCCACCCAATAACCCTTATACTATGGTAAGGAGTGAGT
ATACTTTTGTATAGAAGTAATAATAAAGTTGAATTGTTTTGATCCTTACGTACTTACAAATAAA
GTTTACGTATGTGCACAGGATGTAGAAAACCATACCTTCTCCAACATATTCGATTACAAATTCT
CCTTTTTTAATATCTTCCTCAGCTACCACCCCATTGCCACATTTCTCTGTCTAGAAGAAACTGT
TAGTCATTTAGGGTATAGATAAAAAGGGATAAATCTGTACTAAATACTAAATACAGTATAGAAA
CATGGGAAAGTAGATTATGAATGTCAATCATGAGATCACAAAGATATAAAGGAATTTGGATGGC
TATGGTACAGGATATGCTGACGATAGAATATGCCTCTATATGAAGGCGATGTTGGAAGGTATAC
TACAAATTAGTTAATCGCGTATTGTACATAGACATAAGGCCAAACATACAGAAAATATAAAGGG
ATATGGATATAATGTTTCTAAAATGTCTGATTATTAAGCAAGTAAAAAGGCACTGTATTATGAG
TTGTAAATGATAGAACGAGGATTTGAAAATTGTGAAACAAACAGGCCAGACAAATAAGGAGCAT
GGGCAGCAGGATGAAGAGAATTCCTGACCACACTGACCTAGCACTATTGGGTAAGAAATAACCC
ATCCCTGTCCTGGTCAAATCCGAAGAAGCATAACAGTGGAATATTCACAGGACACCAAGGAATC
ATGCTATACTAGGAAGTAGGAATGCATTATGAAACTAGGAGAGCAGACAACCAGATTAATGGAT
GTTAAAATCATGAAAATCACCATTAAAATCAGGTTGGATTCTGCCTAGGGGGGGGGGGGGGCGT
TTTACCTGGTTACCGTACTTGAGGGGTATATAATAGACATTACTTAAGAAGGAATGCCCAAACA
AGGAGGTTTATTCCCAATCGTATCGATATTATACGGAAAGTTTTGAAAGAAATTAATAATCTAC
CATAATCTGATTGAGATCTATCCTACCATAACTGGATTCATAGTTTAAGTTTTTCTTCTCATTT
ATTTCATATGGCTAACATTTCCTTTATCATTCACAGCGTCCTATACTCGTATACTACTTTATAG
TTTCCACGAGAAAAGCTGACATTTTTAACAAGTGTCCTATACTCCTATATTACTTTACAGTTTA
CACTTTACACAAGAAAAGCTGACATTTTTAACAAGGAACACATAGTTGAAAGACTATTTTTATA
ACATTTATTGCATCAAAACTTTATTAGCATCAGCTACAGCAATGGCATATTTATCCACAGTCAG
CTTAAATGGTAATCTGCCAACTCAACAATGGTAGAAACTTGATTCAATCATACCTTAATTAATT
TGGTTTTCCTCAAAGTCCTATGCTGGAACGGTTTGTTAGCACATTTATTCTCACATTTACAGGT
CGACGAACAACAAGAGAACAACATC
						
					

			
		

Sequences
Splice junction sequence	CTTAATTAATTTGGTTTTCCTCAAAGTCCTATGCTGGAACGGTTTGTTAGCACATTTATTCTCA CATTTACAGGTCGACGAACAACAAGAGAACAACATCatgctgtgacgtcgatgccacaaacgga caatctccccaatacaattctccaaatatgtctttcttttcttccggacatgctgatcttgtga cagatttc
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	ATGCTGTGACGTCGATGCCACAAACGGACAATCTCCCCAATACAATTCTCCAAATATGTCTTTC TTTTCTTCCGGACATGCTGATCTTGTGACAGATTTCCATTATGAAGTACAATTGAGTTAACAGG CTTTGTGATGCCAAGCATTTTTCGACAGTTTGAAGATCCACAGTGACAATCTTGATCAGCTCCA AATTGGACAAACCTGTAGGTAAAGCCGAGAAATTAAATACCAGGAGTAGTTCCATATACAGAAA ATGATGAATCATTATGCCCGAGTGAAATGAAAAGAAGTCAAGGATAGAACTAGAACAAAAATAC TTGTAATCATAGGTCAGCTCCTCCCCCGTTTTTATGTCACGAAGAGCAAAAATTCCAACTCTGG TCTCTCCCTCAACAGTCCTGAAACAATATAAATACTAGTCATATATCAGGGTGATGTTAGAAGA ACAGCATATATGAATGAGCTGACAAGAGTATAACTTACCATTTCTGCATCTCTGTGTTTGGCTC ACAGCTATGATTTATGAAGCGCGACATGTTTCCTTTGTTGGTCGCGTCGATCACCATATTACTA CTGACCTCACAAAGATAGAAATTAGTGTCACCCTGCCTCTTCATTTTCCATAGTCTCTGCTCAC ATGTTCTGTCATCAATAACTACAATATGTTTGCAAGATATGTGGATATTAGTTTTTAGCTCCAA GTTATTGTATATTGTAACAGTTTGAAAAAGATTTACTGGAGGATATGATAGCCCTCCAACCCAC AATCTGGATTCTGGACTTTAGTTTGATTACCAATATGTTCAATGTGAGAACTCATATCAATAGA TCGAATTATCGATCTATCTATACCTATACTAATCGGACACTCTGAGGAAAATCTCACGTTTAAG CACAGTAGTGGATAAAAATCTGGTCATTAATCTAGGTGGGACTAAACCATGACGACTTGAATTA AAAGAAGAGTCCAAGTGAAGTAAGTTACAACTTGCTTTTTAGTAATTTCTAAATCCATAACTAA ATTAACAGGATAGAAGGTTGAGATTCCAAGACAGATACAATATTTATGAATTCTGAGTTTTGGA ATTACTAAATATAAAAAAACTCAAATTGCAACTCCAAGACAAGTACAACTTCTATATTAATTCC AAACTTAGAATTTGTTTCATCAAGAACAAATAAGATTAGAACTACGTACAAACAACAAATTTAT ACTCCCTGTCCCAAAACATAGCCTTGAACTACAAAGGTAGCTATATTTTGGGACAGAATACGAC TTACCAAAATTGAATTTTGAGACTTAAACCAGTTACAGCTTTGTATGTAAAGCTTTTATTCATT ACTTTCGAATCTCAGTACTACAATTCATATCTTGCAAAAAAAAAAATCAAGGACAAACAAAAAT TAAGACTCCGTGACAAGTAAACCATTGTATATATTAATTCTAATTGTTTAATAATTAAAAATGA AAAAAATAAAAAGTAAAAAAATAAGTATTACTGTGGATTCGGTATACTCCCTCCATCCCATAAT ATAAGTGATTTTGGATGGCTGTAACACATCCTAGTACAATGAATCTGGACAGACCGTCTGTCCA GATTCATTGTACTATGATGTGTCACATCCACCCAATAACCCTTATACTATGGTAAGGAGTGAGT ATACTTTTGTATAGAAGTAATAATAAAGTTGAATTGTTTTGATCCTTACGTACTTACAAATAAA GTTTACGTATGTGCACAGGATGTAGAAAACCATACCTTCTCCAACATATTCGATTACAAATTCT CCTTTTTTAATATCTTCCTCAGCTACCACCCCATTGCCACATTTCTCTGTCTAGAAGAAACTGT TAGTCATTTAGGGTATAGATAAAAAGGGATAAATCTGTACTAAATACTAAATACAGTATAGAAA CATGGGAAAGTAGATTATGAATGTCAATCATGAGATCACAAAGATATAAAGGAATTTGGATGGC TATGGTACAGGATATGCTGACGATAGAATATGCCTCTATATGAAGGCGATGTTGGAAGGTATAC TACAAATTAGTTAATCGCGTATTGTACATAGACATAAGGCCAAACATACAGAAAATATAAAGGG ATATGGATATAATGTTTCTAAAATGTCTGATTATTAAGCAAGTAAAAAGGCACTGTATTATGAG TTGTAAATGATAGAACGAGGATTTGAAAATTGTGAAACAAACAGGCCAGACAAATAAGGAGCAT GGGCAGCAGGATGAAGAGAATTCCTGACCACACTGACCTAGCACTATTGGGTAAGAAATAACCC ATCCCTGTCCTGGTCAAATCCGAAGAAGCATAACAGTGGAATATTCACAGGACACCAAGGAATC ATGCTATACTAGGAAGTAGGAATGCATTATGAAACTAGGAGAGCAGACAACCAGATTAATGGAT GTTAAAATCATGAAAATCACCATTAAAATCAGGTTGGATTCTGCCTAGGGGGGGGGGGGGGCGT TTTACCTGGTTACCGTACTTGAGGGGTATATAATAGACATTACTTAAGAAGGAATGCCCAAACA AGGAGGTTTATTCCCAATCGTATCGATATTATACGGAAAGTTTTGAAAGAAATTAATAATCTAC CATAATCTGATTGAGATCTATCCTACCATAACTGGATTCATAGTTTAAGTTTTTCTTCTCATTT ATTTCATATGGCTAACATTTCCTTTATCATTCACAGCGTCCTATACTCGTATACTACTTTATAG TTTCCACGAGAAAAGCTGACATTTTTAACAAGTGTCCTATACTCCTATATTACTTTACAGTTTA CACTTTACACAAGAAAAGCTGACATTTTTAACAAGGAACACATAGTTGAAAGACTATTTTTATA ACATTTATTGCATCAAAACTTTATTAGCATCAGCTACAGCAATGGCATATTTATCCACAGTCAG CTTAAATGGTAATCTGCCAACTCAACAATGGTAGAAACTTGATTCAATCATACCTTAATTAATT TGGTTTTCCTCAAAGTCCTATGCTGGAACGGTTTGTTAGCACATTTATTCTCACATTTACAGGT CGACGAACAACAAGAGAACAACATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.117575727

Conservation Information
Conserved circRNAs	NA
PMCS	0.117575727

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8044833-8041893(+)
8042375-8043617(-)
						
						Potential amino acid sequence
						
							MLERFVSTFILTFTGRRTTREQHHAVTSMPQTDNLPNTILQICLSFLPDMLIL*(+)
MVIDATNKGNMSRFINHSCEPNTEMQKWTVEGETRVGIFALRDIKTGEELTYDYKFVQFGADQD
CHCGSSNCRKMLGITKPVNSIVLHNGNLSQDQHVRKKRKTYLENCIGEIVRLWHRRHSMMLFSC
CSSTCKCENKCANKPFQHRTLRKTKLIKFLLDREMWQWGGS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8044833-8041893(+) 8042375-8043617(-)
Potential amino acid sequence	MLERFVSTFILTFTGRRTTREQHHAVTSMPQTDNLPNTILQICLSFLPDMLIL(+) MVIDATNKGNMSRFINHSCEPNTEMQKWTVEGETRVGIFALRDIKTGEELTYDYKFVQFGADQD CHCGSSNCRKMLGITKPVNSIVLHNGNLSQDQHVRKKRKTYLENCIGEIVRLWHRRHSMMLFSC CSSTCKCENKCANKPFQHRTLRKTKLIKFLLDREMWQWGGS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0307800_circ_g.2

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