Plant Circular RNA Database

Detail information of Os07g0613300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os07g0613300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_034732
					
						Alias
						Os_ciR11089
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 25244684-25247206  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os07g0613300						
					
						Parent gene annotation
						
							Similar to PAUSED. (Os07t0613300-01);Similar to PAUSED. (Os07t06
13300-02);Similar to predicted protein. (Os07t0613300-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						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
						Os07t0613300-01:6
Os07t0613300-03:6
Os07t0613300-02:6

General Information
CircRNA Name	Os07g0613300_circ_g.4
ID in PlantcircBase	osa_circ_034732
Alias	Os_ciR11089
Organism	Oryza sativa
Position	chr7: 25244684-25247206 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os07g0613300
Parent gene annotation	Similar to PAUSED. (Os07t0613300-01);Similar to PAUSED. (Os07t06 13300-02);Similar to predicted protein. (Os07t0613300-03)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
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	Os07t0613300-01:6 Os07t0613300-03:6 Os07t0613300-02:6

			
						 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  
						
							TTGTATTATTGCCTTCACATCTTTGTGTTAACTTGCTATAATTTGCAGGGTAGTTGTATCATCT
ATGTACATAAAGCTCTACCATTTCTGAGATCAGAAGgaaatgcgtgagctgcaagagctggaaa
agagattttacgcattcttgcttcatatagcaacacatgatctgtctacagttctcctaactcc
tagttgta

									
								

					

						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
						
							GAAATGCGTGAGCTGCAAGAGCTGGAAAAGAGATTTTACGCATTCTTGCTTCATATAGCAACAC
ATGATCTGTCTACAGTTCTCCTAACTCCTAGTTGTAGGCATTATCTAGAGAACATAATGCAGTT
GCTTTTGATTACTTCATGCAGCCATAAAGAGATATCACATCGGAAGGTGGGGTTTAATTGATCT
TGAATTTCTTATTTCCACTTCAAGCGAGTTACATTCTCCATCTCCACTTTAAATAGAATTGTCT
ATTTTATACTCGGTTATTGTTTTGTAGACATGCGTACAGACTTTTGTCAACCTTATCAAAGACT
GGTGTAGTAGCTCTGAAATTGAAGATAAGGTATTGTTGTGTTCAGTTCTTCTTATGTCATGTTT
TGAAGAGTCTATCTAGTACTTGGGCAGTTGCATTACTCATAATGTCATGTATTTCTTGTTTTCC
TCAGCTTCCTGGCTTCCGAGTGTTTATGATTGAGAAGTTCGCTACTGGTTGCTGTTTGCAGAGT
GTCCTTGACAAGTCATTTAACTTCCGTGATGGAATTTCGGTAGGACCTGTCAACCATACAATCT
ATATCTATCTAAATTTCTCGTACCTGTTTTACTGTGTTAAATGTATACCATCAAGTAGTTATTA
TACTGTTTGTCTATTGCTTCATTAAATTCTTGGTAATTTTATTAATGTCCGTCCTGATAGGGTT
TATAGGCATTTGATTGTGACCTCCAGCCTATAGGTGTCCGATTGGAGGTGAAACTGCAGTTTGT
AGTCTAATATGTGATCTCTTATCACTTCCTAAACATCAGATTTACTTGGATCAAATGGCAATCT
AAATCTCCACTCTATATAAACTATTCAGGTGATTATGTAGCTTGTTGGGCACACTGATTTCTTA
AAAATTCTTAGAATATTTAACTTGAGCGATAAATTTCTTTGTACTTTGACAATGTATATGTTTT
CTGTAACCAACCTTTCATATATTATTCTCATGATGTTTAAAGTGCCACTAGGTAGTGTTTGAAT
TCTATTGCCATAAATGCCTTTTAATTGTTCTCAAGCAGACTGGGTTGCGACATTTGAATCTTAT
TGGTCACAACCTCTTTTGACATTCCCAAGCCCCACAGTTTCATGTTGGTCCCTAGAAGCGAGAA
TACACTCTACTTTCTCTTAAATTTGAAATACAATCTGCAAATATTTCTATATGCCCCACTACTA
TGTAAGGGAGCGTCAAACTAATCTGTTCCCTTTGCTGATGGAATGTTAATATGACAATTGAAAA
TTCAGTTGGCCAATGGGATGCAATGAGCTATGTCTTGGTGCTTTCATTACTTCTCAAGGAGGGC
ATAAATGATTAGAGGCTCAGTGGCCAAAGTAGGCATGTAGCAATGCAATTCTCGGTGACAGTCT
TGCTAGGTTATCATTTAGTTAATTACTAATCTAAAAGCAAATAGAACATGAGTTATTTTCTTCC
TTTAAATGATTGTTGTCTCACAACTTATTGTCTTGTCATTTTACTTCATTACTATAGTTGAAAT
GGACATGACTTTTGCGTGGTGATGGATGTATTTCTTTACATTCAAGAGCTTAGTCTAATCTGCT
TCTTTCTTAGATTGCCCTGTTTGGTGAAATCATGATGGCTCAAAAGGTTATGTATGAAAGATTT
GGCGAGAACTTTGTTGTAAATTTTGTAACAAAACTTCGAGAAGCACACTGCCCACCAGACCTTG
CTGAACAGTACTACCAAAAGTTACAGGTATGCTTGTTCTTTTGATTCCACTGTGTTTGAGGTTG
CTAACTGCACAAAAGCTAGAACATAGCTATCATTGCAATTTTAAAAAGTTGAACCGTTCCCTTA
ATTTACGAAGTTAAATGTAAGTACATTGTGTTGCTGTCTCGTTGATAACTGGTTGACTTGCCAT
CAAAATGCCATCGAGGTTTGGGAAGTTGTTAGTACCATGATGGAGCTCTAGTTTATTTGTTGTG
GCTTATATGAGAGAGCAAGTATTTAGCATTTACCTTCAGACTTGAGTAATGATTCAATGGGTAA
TTATCATTTGTTTGTCGTATTACTAAAGCAATGGTGTTTGTTCTATGGTTTTATTACAAACAAA
GTAATAAGATGCTGACATAATTCAGGAATTTGTAATCTGATCTCTTATCTGCTGTATCAAATTT
AAATTTTTCACTTTTACTTTTCTCCATCACAGGGAAATGATATCAAGGCATTCAAGTCATTTTA
TGAATCACTTGTCATGAAAATAAGACAACAGCAGAATGGGAGTCTTGTCTTCAGATAGCGTCAT
TCAATTATTTTAAATCTGTTTGCCAGTGAAAGATTCCTCAGTTCTACAATTTGAATATAGGTAG
TTATTTCATTCTTTTCTTGGCTTATCAACAATATGCTTATTCCTGCATGACTTGCTTGTATTAT
TGCCTTCACATCTTTGTGTTAACTTGCTATAATTTGCAGGGTAGTTGTATCATCTATGTACATA
AAGCTCTACCATTTCTGAGATCAGAAG
						
					

			
		

Sequences
Splice junction sequence	TTGTATTATTGCCTTCACATCTTTGTGTTAACTTGCTATAATTTGCAGGGTAGTTGTATCATCT ATGTACATAAAGCTCTACCATTTCTGAGATCAGAAGgaaatgcgtgagctgcaagagctggaaa agagattttacgcattcttgcttcatatagcaacacatgatctgtctacagttctcctaactcc tagttgta
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	GAAATGCGTGAGCTGCAAGAGCTGGAAAAGAGATTTTACGCATTCTTGCTTCATATAGCAACAC ATGATCTGTCTACAGTTCTCCTAACTCCTAGTTGTAGGCATTATCTAGAGAACATAATGCAGTT GCTTTTGATTACTTCATGCAGCCATAAAGAGATATCACATCGGAAGGTGGGGTTTAATTGATCT TGAATTTCTTATTTCCACTTCAAGCGAGTTACATTCTCCATCTCCACTTTAAATAGAATTGTCT ATTTTATACTCGGTTATTGTTTTGTAGACATGCGTACAGACTTTTGTCAACCTTATCAAAGACT GGTGTAGTAGCTCTGAAATTGAAGATAAGGTATTGTTGTGTTCAGTTCTTCTTATGTCATGTTT TGAAGAGTCTATCTAGTACTTGGGCAGTTGCATTACTCATAATGTCATGTATTTCTTGTTTTCC TCAGCTTCCTGGCTTCCGAGTGTTTATGATTGAGAAGTTCGCTACTGGTTGCTGTTTGCAGAGT GTCCTTGACAAGTCATTTAACTTCCGTGATGGAATTTCGGTAGGACCTGTCAACCATACAATCT ATATCTATCTAAATTTCTCGTACCTGTTTTACTGTGTTAAATGTATACCATCAAGTAGTTATTA TACTGTTTGTCTATTGCTTCATTAAATTCTTGGTAATTTTATTAATGTCCGTCCTGATAGGGTT TATAGGCATTTGATTGTGACCTCCAGCCTATAGGTGTCCGATTGGAGGTGAAACTGCAGTTTGT AGTCTAATATGTGATCTCTTATCACTTCCTAAACATCAGATTTACTTGGATCAAATGGCAATCT AAATCTCCACTCTATATAAACTATTCAGGTGATTATGTAGCTTGTTGGGCACACTGATTTCTTA AAAATTCTTAGAATATTTAACTTGAGCGATAAATTTCTTTGTACTTTGACAATGTATATGTTTT CTGTAACCAACCTTTCATATATTATTCTCATGATGTTTAAAGTGCCACTAGGTAGTGTTTGAAT TCTATTGCCATAAATGCCTTTTAATTGTTCTCAAGCAGACTGGGTTGCGACATTTGAATCTTAT TGGTCACAACCTCTTTTGACATTCCCAAGCCCCACAGTTTCATGTTGGTCCCTAGAAGCGAGAA TACACTCTACTTTCTCTTAAATTTGAAATACAATCTGCAAATATTTCTATATGCCCCACTACTA TGTAAGGGAGCGTCAAACTAATCTGTTCCCTTTGCTGATGGAATGTTAATATGACAATTGAAAA TTCAGTTGGCCAATGGGATGCAATGAGCTATGTCTTGGTGCTTTCATTACTTCTCAAGGAGGGC ATAAATGATTAGAGGCTCAGTGGCCAAAGTAGGCATGTAGCAATGCAATTCTCGGTGACAGTCT TGCTAGGTTATCATTTAGTTAATTACTAATCTAAAAGCAAATAGAACATGAGTTATTTTCTTCC TTTAAATGATTGTTGTCTCACAACTTATTGTCTTGTCATTTTACTTCATTACTATAGTTGAAAT GGACATGACTTTTGCGTGGTGATGGATGTATTTCTTTACATTCAAGAGCTTAGTCTAATCTGCT TCTTTCTTAGATTGCCCTGTTTGGTGAAATCATGATGGCTCAAAAGGTTATGTATGAAAGATTT GGCGAGAACTTTGTTGTAAATTTTGTAACAAAACTTCGAGAAGCACACTGCCCACCAGACCTTG CTGAACAGTACTACCAAAAGTTACAGGTATGCTTGTTCTTTTGATTCCACTGTGTTTGAGGTTG CTAACTGCACAAAAGCTAGAACATAGCTATCATTGCAATTTTAAAAAGTTGAACCGTTCCCTTA ATTTACGAAGTTAAATGTAAGTACATTGTGTTGCTGTCTCGTTGATAACTGGTTGACTTGCCAT CAAAATGCCATCGAGGTTTGGGAAGTTGTTAGTACCATGATGGAGCTCTAGTTTATTTGTTGTG GCTTATATGAGAGAGCAAGTATTTAGCATTTACCTTCAGACTTGAGTAATGATTCAATGGGTAA TTATCATTTGTTTGTCGTATTACTAAAGCAATGGTGTTTGTTCTATGGTTTTATTACAAACAAA GTAATAAGATGCTGACATAATTCAGGAATTTGTAATCTGATCTCTTATCTGCTGTATCAAATTT AAATTTTTCACTTTTACTTTTCTCCATCACAGGGAAATGATATCAAGGCATTCAAGTCATTTTA TGAATCACTTGTCATGAAAATAAGACAACAGCAGAATGGGAGTCTTGTCTTCAGATAGCGTCAT TCAATTATTTTAAATCTGTTTGCCAGTGAAAGATTCCTCAGTTCTACAATTTGAATATAGGTAG TTATTTCATTCTTTTCTTGGCTTATCAACAATATGCTTATTCCTGCATGACTTGCTTGTATTAT TGCCTTCACATCTTTGTGTTAACTTGCTATAATTTGCAGGGTAGTTGTATCATCTATGTACATA AAGCTCTACCATTTCTGAGATCAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106447041

Conservation Information
Conserved circRNAs	NA
PMCS	0.106447041

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25244728-25247171(-)
25244751-25247167(-)
						
						Potential amino acid sequence
						
							MRKISFPALAAHAFPSDLRNGRALCT*(-)
MCCYMKQECVKSLFQLLQLTHFLLISEMVELYVHR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25244728-25247171(-) 25244751-25247167(-)
Potential amino acid sequence	MRKISFPALAAHAFPSDLRNGRALCT(-) MCCYMKQECVKSLFQLLQLTHFLLISEMVELYVHR(-)
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 Os07g0613300_circ_g.4

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