Plant Circular RNA Database

Detail information of Os06g0614300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0614300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_031377
					
						Alias
						Os_ciR4907
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 24576229-24577971  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0614300						
					
						Parent gene annotation
						
							C-CAP/cofactor C-like domain domain containing protein. (Os06t06
14300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0614300_circ_g.2 						
					
						Support reads
						4/2
					
						Tissues
						root/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
						Os06t0614300-01:3

General Information
CircRNA Name	Os06g0614300_circ_g.1
ID in PlantcircBase	osa_circ_031377
Alias	Os_ciR4907
Organism	Oryza sativa
Position	chr6: 24576229-24577971 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0614300
Parent gene annotation	C-CAP/cofactor C-like domain domain containing protein. (Os06t06 14300-01)
Parent gene strand	+
Alternative splicing	Os06g0614300_circ_g.2
Support reads	4/2
Tissues	root/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	Os06t0614300-01:3

			
						 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  
						
							GAACTGCCATGACTCTGTTATCTACATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGT
TCTGACACTACTATCGTTCTTGGTGCTGTTGGTAAGcttgtacgcagtaacagtcgccggttta
tgccttcacaagcagatgaagaagctcatcaattatcttatctgcaaaagcatatggtcaacat
tctgagtc

									
								

					

						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: 132
Transcript exons: 24576229-24576287,24577899-24577971
CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAG
CTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTTGGTGCTGTTGG
TAAG
Transcript length: 651
Transcript exons: 24576229-24576369,24577287-24577691,24577867-24577971
CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAT
CTTATCTGCAAAAGCATATGGTCAACATTCTGAGTCTTTTGGCAGATTCTGTTGATGGAGAGGG
CGATGAGTCTATGGTATTGACAGCAGAGACATTTGAGCATCTCGGATTTTTATTTCAGTTTTCT
GAAGGGACTCCTTTAAGCCAAGTGGCTACATTTTTTGCAAATTCTGATCCAGACATGCCTGCTG
CACCTGTTCCCGCTGCTCAGGTTCATGATTGGATTCTGCAGAATATAGCTGCTTCATTAGAAAA
TACAGCAGAAAAATTGACAGCAAAGGAAAACAGCCAACAGAGTGCATCTGATCCTGATGTGACA
ATGGCTGAGGCTGTCACAAATTCAAGAATTCATAGCAGTTCACCAACTGGAACTGCTGTTCCAA
ACAATCAAGGACACTACCGAAATACAACTTTCCTGGAGGGTTTCTCCAAAACTTCTGTAGTGAA
ACAAGCATCAGATATCAAAGGGCATTCAATAAAGGTTTTGAACTGCCATGACTCTGTTATCTAC
ATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTTGGTG
CTGTTGGTAAG
						
					

						Genomic sequence
						
							CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAT
CTTATCTGCAAAAGCATATGGTCAACATTCTGAGTCTTTTGGCAGATTCTGTTGATGGAGAGGG
CGATGAGTCTATGGTTAGTATAGCTATTGTATAAATGTTTGTCTGTCCTTTTCTGATGTAGTTG
TTTGTGGAAAAAAACATATAATTGTTTCCTGTTCAGTGCCCATGAGTCCATAACTACGATTAAA
TTTGTCCTCTTGATTCCAAATATAAGTCCTTTTAAACCTGTGCACAAGAATTTAGAAAATAAGG
CCGAGTTTAGTTCCAAACTATTTCTTCAAACTTCCAACTTTTCCATCACATCAAAACTTTCCTA
CACACACAAACTTCCAACTTTTCCGTCACATCGTTCCAATTTCAACCAAACTTCCAATTTTAGC
GTGAACTAAACACACCCTAACTGACTTGACTTTGTTGCCACATTGAAAAGATGAGTTATCTATT
TGTGAGAGGAGTAGCATTTGTTTGGCAAGAGCAAACATGGAAGGGAAGATGAAAAAGGTGCTGG
AAGACTGGAAGTTATAAACAGCATACATTTAGGAAAGATCAAATGGACCTGCATTTGGAATCAC
ATTTTGGAATAGGAGGGGGTATAACTCAAAGCTTTATCAAGCAAATAAAGGACTGGAAAGGGCC
CTCCACTGTGTGATAAAAAGAAATAATGAATAGTCAGATAACATATTCATATGATGATATGAAC
AGTTATGGGTACGGAAGCTTCATCGCCTGTTCAGGAAGCAGCTGACAAAGTAAATTCTAGGCTA
ATTTCTGCAATGAAATGTACTTTTTAATTTTTTGGATCAATAGAATATTGAAGATCTTGATGTA
TAGGTCCATCGTTGTGTACTACTTTCAAACTCCCAATAAATCTGGGCACTTTAAGTCATGTAGG
ATTAATTATTCCATTTGAAAAGTATATTCAACTTTATGGTATTTTTAGTCTCAAGATTCCCTGG
ACCCTAACTGTTATGCACATTGCTTTTTATGCAGGTATTGACAGCAGAGACATTTGAGCATCTC
GGATTTTTATTTCAGTTTTCTGAAGGGACTCCTTTAAGCCAAGTGGCTACATTTTTTGCAAATT
CTGATCCAGACATGCCTGCTGCACCTGTTCCCGCTGCTCAGGTTCATGATTGGATTCTGCAGAA
TATAGCTGCTTCATTAGAAAATACAGCAGAAAAATTGACAGCAAAGGAAAACAGCCAACAGAGT
GCATCTGATCCTGATGTGACAATGGCTGAGGCTGTCACAAATTCAAGAATTCATAGCAGTTCAC
CAACTGGAACTGCTGTTCCAAACAATCAAGGACACTACCGAAATACAACTTTCCTGGAGGGTTT
CTCCAAAACTTCTGTAGTGAAACAAGCATCAGATATCAAAGGGCATTCAATAAAGGTATGCATC
TATTAGTTTTTGGTAGTACTATAAACATCTAGAGGGCGGAATAGCCTTACTTTGTTATTGATAT
CTCTGTGTGTTGTAATTCAAAAAACAGAAACTACCTACTCCAGACTCTTATTTGAAAGTCGAGA
TTTTGTCAGCCTACTATTGATGAAATTTTTTTTTGTAGGTTTTGAACTGCCATGACTCTGTTAT
CTACATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTT
GGTGCTGTTGGTAAG
						
					

			
		

Sequences
Splice junction sequence	GAACTGCCATGACTCTGTTATCTACATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGT TCTGACACTACTATCGTTCTTGGTGCTGTTGGTAAGcttgtacgcagtaacagtcgccggttta tgccttcacaagcagatgaagaagctcatcaattatcttatctgcaaaagcatatggtcaacat tctgagtc
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: 132 Transcript exons: 24576229-24576287,24577899-24577971 CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAG CTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTTGGTGCTGTTGG TAAG Transcript length: 651 Transcript exons: 24576229-24576369,24577287-24577691,24577867-24577971 CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAT CTTATCTGCAAAAGCATATGGTCAACATTCTGAGTCTTTTGGCAGATTCTGTTGATGGAGAGGG CGATGAGTCTATGGTATTGACAGCAGAGACATTTGAGCATCTCGGATTTTTATTTCAGTTTTCT GAAGGGACTCCTTTAAGCCAAGTGGCTACATTTTTTGCAAATTCTGATCCAGACATGCCTGCTG CACCTGTTCCCGCTGCTCAGGTTCATGATTGGATTCTGCAGAATATAGCTGCTTCATTAGAAAA TACAGCAGAAAAATTGACAGCAAAGGAAAACAGCCAACAGAGTGCATCTGATCCTGATGTGACA ATGGCTGAGGCTGTCACAAATTCAAGAATTCATAGCAGTTCACCAACTGGAACTGCTGTTCCAA ACAATCAAGGACACTACCGAAATACAACTTTCCTGGAGGGTTTCTCCAAAACTTCTGTAGTGAA ACAAGCATCAGATATCAAAGGGCATTCAATAAAGGTTTTGAACTGCCATGACTCTGTTATCTAC ATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTTGGTG CTGTTGGTAAG
Genomic sequence	CTTGTACGCAGTAACAGTCGCCGGTTTATGCCTTCACAAGCAGATGAAGAAGCTCATCAATTAT CTTATCTGCAAAAGCATATGGTCAACATTCTGAGTCTTTTGGCAGATTCTGTTGATGGAGAGGG CGATGAGTCTATGGTTAGTATAGCTATTGTATAAATGTTTGTCTGTCCTTTTCTGATGTAGTTG TTTGTGGAAAAAAACATATAATTGTTTCCTGTTCAGTGCCCATGAGTCCATAACTACGATTAAA TTTGTCCTCTTGATTCCAAATATAAGTCCTTTTAAACCTGTGCACAAGAATTTAGAAAATAAGG CCGAGTTTAGTTCCAAACTATTTCTTCAAACTTCCAACTTTTCCATCACATCAAAACTTTCCTA CACACACAAACTTCCAACTTTTCCGTCACATCGTTCCAATTTCAACCAAACTTCCAATTTTAGC GTGAACTAAACACACCCTAACTGACTTGACTTTGTTGCCACATTGAAAAGATGAGTTATCTATT TGTGAGAGGAGTAGCATTTGTTTGGCAAGAGCAAACATGGAAGGGAAGATGAAAAAGGTGCTGG AAGACTGGAAGTTATAAACAGCATACATTTAGGAAAGATCAAATGGACCTGCATTTGGAATCAC ATTTTGGAATAGGAGGGGGTATAACTCAAAGCTTTATCAAGCAAATAAAGGACTGGAAAGGGCC CTCCACTGTGTGATAAAAAGAAATAATGAATAGTCAGATAACATATTCATATGATGATATGAAC AGTTATGGGTACGGAAGCTTCATCGCCTGTTCAGGAAGCAGCTGACAAAGTAAATTCTAGGCTA ATTTCTGCAATGAAATGTACTTTTTAATTTTTTGGATCAATAGAATATTGAAGATCTTGATGTA TAGGTCCATCGTTGTGTACTACTTTCAAACTCCCAATAAATCTGGGCACTTTAAGTCATGTAGG ATTAATTATTCCATTTGAAAAGTATATTCAACTTTATGGTATTTTTAGTCTCAAGATTCCCTGG ACCCTAACTGTTATGCACATTGCTTTTTATGCAGGTATTGACAGCAGAGACATTTGAGCATCTC GGATTTTTATTTCAGTTTTCTGAAGGGACTCCTTTAAGCCAAGTGGCTACATTTTTTGCAAATT CTGATCCAGACATGCCTGCTGCACCTGTTCCCGCTGCTCAGGTTCATGATTGGATTCTGCAGAA TATAGCTGCTTCATTAGAAAATACAGCAGAAAAATTGACAGCAAAGGAAAACAGCCAACAGAGT GCATCTGATCCTGATGTGACAATGGCTGAGGCTGTCACAAATTCAAGAATTCATAGCAGTTCAC CAACTGGAACTGCTGTTCCAAACAATCAAGGACACTACCGAAATACAACTTTCCTGGAGGGTTT CTCCAAAACTTCTGTAGTGAAACAAGCATCAGATATCAAAGGGCATTCAATAAAGGTATGCATC TATTAGTTTTTGGTAGTACTATAAACATCTAGAGGGCGGAATAGCCTTACTTTGTTATTGATAT CTCTGTGTGTTGTAATTCAAAAAACAGAAACTACCTACTCCAGACTCTTATTTGAAAGTCGAGA TTTTGTCAGCCTACTATTGATGAAATTTTTTTTTGTAGGTTTTGAACTGCCATGACTCTGTTAT CTACATATTAGCTCCTGTTAAATATGCCACTGTCTATGGGTGTTCTGACACTACTATCGTTCTT GGTGCTGTTGGTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016427 						
					
						PMCS
						0.255905068

Conservation Information
Conserved circRNAs	osi_circ_016427
PMCS	0.255905068

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24576257-24577968(+)
24577917-24576322(+)
						
						Potential amino acid sequence
						
							MPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQFSEGTPLSQVA
TFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPDVTMAEAVTNSR
IHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSVIYILAPVKYAT
VYGCSDTTIVLGAVGKLVRSNSRRFMPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMV
LTAETFEHLGFLFQFSEGTPLSQVATFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKL
TAKENSQQSASDPDVTMAEAVTNSRIHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDI
KGHSIKVLNCHDSVIYILAPVKYATVYGCSDTTIVLGAVGKLVRSNSRRFMPSQADEEAHQLSY
LQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQFSEGTPLSQVATFFANSDPDMPAAP
VPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPDVTMAEAVTNSRIHSSSPTGTAVPNN
QGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSVIYILAPVKYATVYGCSDTTIVLGAV
GKLVRSNSRRFMPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQ
FSEGTPLSQVATFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPD
VTMAEAVTNSRIHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSV
IYILAPVKYATVYGCSDTTIVLGAVGK(+)
MPLSMGVLTLLSFLVLLVSLYAVTVAGLCLHKQMKKLINYLICKSIWSTF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24576257-24577968(+) 24577917-24576322(+)
Potential amino acid sequence	MPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQFSEGTPLSQVA TFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPDVTMAEAVTNSR IHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSVIYILAPVKYAT VYGCSDTTIVLGAVGKLVRSNSRRFMPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMV LTAETFEHLGFLFQFSEGTPLSQVATFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKL TAKENSQQSASDPDVTMAEAVTNSRIHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDI KGHSIKVLNCHDSVIYILAPVKYATVYGCSDTTIVLGAVGKLVRSNSRRFMPSQADEEAHQLSY LQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQFSEGTPLSQVATFFANSDPDMPAAP VPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPDVTMAEAVTNSRIHSSSPTGTAVPNN QGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSVIYILAPVKYATVYGCSDTTIVLGAV GKLVRSNSRRFMPSQADEEAHQLSYLQKHMVNILSLLADSVDGEGDESMVLTAETFEHLGFLFQ FSEGTPLSQVATFFANSDPDMPAAPVPAAQVHDWILQNIAASLENTAEKLTAKENSQQSASDPD VTMAEAVTNSRIHSSSPTGTAVPNNQGHYRNTTFLEGFSKTSVVKQASDIKGHSIKVLNCHDSV IYILAPVKYATVYGCSDTTIVLGAVGK(+) MPLSMGVLTLLSFLVLLVSLYAVTVAGLCLHKQMKKLINYLICKSIWSTF*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os06g0614300_circ_g.1

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