Plant Circular RNA Database

Detail information of Os11g0147050_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os11g0147050_circ_g.4
					
						ID in PlantcircBase
						osa_circ_008429
					
						Alias
						Os_ciR7099
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 2137599-2140320  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os11g0147050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os11t0147050-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0147050_circ_g.2 Os11g0147050_circ_g.3 Os11g0147050_circ_g.5 Os11g0147050_circ_g.6 Os11g0147050_circ_g.7 						
					
						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  
						
							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
						Os11t0147000-01:8
Os11t0147050-00:6
Os11t0147000-01:8

General Information
CircRNA Name	Os11g0147050_circ_g.4
ID in PlantcircBase	osa_circ_008429
Alias	Os_ciR7099
Organism	Oryza sativa
Position	chr11: 2137599-2140320 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os11g0147050
Parent gene annotation	Hypothetical protein. (Os11t0147050-00)
Parent gene strand	+
Alternative splicing	Os11g0147050_circ_g.2 Os11g0147050_circ_g.3 Os11g0147050_circ_g.5 Os11g0147050_circ_g.6 Os11g0147050_circ_g.7
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	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	Os11t0147000-01:8 Os11t0147050-00:6 Os11t0147000-01:8

			
						 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  
						
							ATGAGATTTCGAGGATTCTTACACGAAATTATCATGAAGCGTTGCAATATCAGGGGTATCAGGG
AATCTATCTATTAACCTAAGAGGTGTCTTCGCATTCctttggtgtgccggttgtgccactagtg
taacaaatagtggcaacatcttcaggttttggaggacgaaaaggtctagaactcatctttccct
gagttgaa

									
								

					

						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: 637
Transcript exons: 2137599-2137688,2138431-2138517,2138617-2138661,2139083-
2139159,2139233-2139338,2139494-2139575,2139666-2139737,
2140243-2140320
CTTTGGTGTGCCGGTTGTGCCACTAGTGTAACAAATAGTGGCAACATCTTCAGGTTTTGGAGGA
CGAAAAGGTCTAGAACTCATCTTTCCCTGGTTGAGTAGTCTGGAGTAAATTATAATTTCCACTC
CAGTAGATGTTGGGGTAGATGGCATATTTGCATTGTCTCCACCAATTACCACTATAAGGCGAAC
ACATGGCATTTGAGTTATAAAGCTTAACAGAGTGCTTAGTGTTTGAGGCACACAGAAAATAGCT
TCTACTGTCGCATGGTTGACAATGAACTGAACTGCATCTGGACCAAGAGTGTCATAAAGTGGCA
CAGACACGAATGAATATGCTGCACAGGCATGATCAACTATGATCCACTCAGGTCTGTTTATAAA
ATACAAACCAATGCATGCACCTTCAGGTATTCCATGATAAATAAGACCAGAACCTATTGCAGTC
CTGTTTGTACTAGCTTCTCCATATGTCATCCATTTGTAGTCCCCAACTGTTCCATCAGCGCAGA
TTCTTGTGCCCAGGTATCTACAGTCCCTAAAGGTCTCAACTGCATACACGAAATTATCATGAAG
CGTTGCAATATCAGGGGTATCAGGGAATCTATCTATTAACCTAAGAGGTGTCTTCGCATTC
						
					

						Genomic sequence
						
							CTTTGGTGTGCCGGTTGTGCCACTAGTGTAACAAATAGTGGCAACATCTTCAGGTTTTGGAGGA
CGAAAAGGTCTAGAACTCATCTTTCCCTGAGTTGAAGATTCAAAAGCGATGGAAAAATAGTGAG
CAAAAGTGCTAGCAACCTTCAATCTAACACCAAAGATTATGTATATGACTGGATACAGATATGC
AGGCATTTGACGCAAAACTTAAAAAGACAATATGTACAGAATGCACATACTATGTGTGTCCATA
AGAAAGAAAAATGAAAACGTAGGCACACTGCTCACACAAATATAAGTGGAAACTAGATGCCACA
TCAACTTTGTCTGATATGGATAAATCATTTGGAACAAGTCTAAATTTAATCAGAGCAACATACA
TGACGGAGTGCAGTCAACTGGTATGCAGTTTGATTCGGTTGACTGAAATTGGAGAACAAATACA
TTTTTTGCGTGGAATAGAACAAATACAATGAACAATATATAGTGTTAGTAAACTCATCTGGTGC
AGACATCTCTAAAACTATATGAGGTGTTAAGACTAGTATCCCATATACTCCCTCTATCCAAAAA
TATAGCAACTTTTAGCATTCTAAGTTTGTCCCAAAATATAGCAACTTCTCCACCTACGTTCTTT
TTTCAACCAATCGCAATCTTCCCTCATTTAATTTATCCATCTACTTCCTCTTTTCGATCAATCA
AAACCTTCTGCCATTTAACTCCACATACTTCCTTAATACCCTTGTTCAACCCCAAAAGTTCTTA
TATTTTGAGATGAAGGTAGTACAATATAGTTTTCAAAAACTGAAGGATCATGTAGCAAATTCAC
CTGGTTGAGTAGTCTGGAGTAAATTATAATTTCCACTCCAGTAGATGTTGGGGTAGATGGCATA
TTTGCATTGTCTCCACCAATTACCTATACAAAACAAGTTAAGAAAAAAAAAACAGAACAAAGAT
TCTTAAAAAATCATGACTGCTCGATTGAACATACTAATTATAAATGGTTCGAACTTACCACTAT
AAGGCGAACACATGGCATTTGAGTTATAAAGCTTAACAGCTGCAATAAATAGAGACATATACAT
AAGCAAACATAAAAATACTTCATTCCAAAGAATATATCATGATTAAATTAAAGGTACAAACTGA
TGTAGTGTTTGAAACAAGGATCAGAATCCACATAAACATATTTCATGGTCAGGGCCCAGCGCTC
AGCCCATTGATCATGTGCGTATGTGGATATGGTTAAGAACAAACAGTATGATGAGCATGCAGTT
TATGCAGTGTGCAGTCTTTTGACATTGTGTGTTCATAGCAGGATGAGATCAGCACCTGAAAGCA
CAGATCTATTTCCTGGAAATAACTAGCTACTTGCCACCTTCAGTAGTTAATGGCTGGTACCAGT
GACATGAAAAGTGCAAATTTTAATGATTGTATAAACTAATAACTATACAAGGCTGAGATAAGGG
GTTAAAGCTCACAGTGCTTAGTGTTTGAGGCACACAGAAAATAGCTTCTACTGTCGCATGGTTG
ACAATGAACTGAACTGCATCTGGACCTGCAGATTACATAAATATTGTTGCTAGATGAATGATAA
GGATATAGATGATCATTTGGTGAATAGTGCATACCAAGAGTGTCATAAAGTGGCACAGACACGA
ATGAATATGCTGCACAGGCATGATCAACTATGATCCACTCAGGTCTGTTTATAAAATACAAACC
AATGCATGCACCCTGGTTCAGAGTTAAAAAAAATAAAGCAAGTTAAAAAAAAAAGGGACTCTCT
AAGTGTAAATACAAATGTTATATCATTGTCCATGTGTGACAAGATCTGCCTGCTACTAGTTAAA
AAAAGAAGGACGGTACTTGTTGCGACCATTATGACTCACTTCAGGTATTCCATGATAAATAAGA
CCAGAACCTATTGCAGTCCTGTTTGTACTAGCTTCTCCATATGTCATCCATTTGTAGCTGCAAA
GTTCCATACATATATCATTTAAAAGATTTGAACAAAGCTACAAAAGCCAATAATAACACATATA
TCCAGGAACTAATCCTTACTCCCCAACTGTTCCATCAGCGCAGATTCTTGTGCCCAGGTATCTA
CAGTCCCTAAAGGTCTCAACTGCATACCTGCGCAATTTGGGGTATATTGCCTCAGAACTTAGCA
CAGAACTTAAATTTGAAGAATAATAATTTTCTTGTAAAGCATGTAGCCTGCAACAGATCTAAAT
TTATCAGCTTTCATAAAACCATCAGATAAAAACCATCTGCATTCAGGCTGTGGATCTAACAATA
GATAAAGGTTAACTCACTTTTCCCTTATAGATACAAACATTTTCCGGCTCCAAGGTTTCAATAA
AATAGCTTAAAGAACAGCTTCCCTTGCCAATAATTCTTTTTATGTAATCAGATTTTCCTAAGAA
TCCTCCTGATACAATTCATCCTAGGGAAAACAGAACTAGCGTTCATTTTGCTTAACTCTATGTT
TGTGCACTCACATGTTTGCTGACAATTCAAAACAAGAATTTGATAAATCATAGCATAACATTTT
GTAAATAACTGAGACTTCGCCAAGTTGAGAATAATATTAAGAAATAAAAGCCGGATGCTCAAAT
GAGATTTCGAGGATTCTTACACGAAATTATCATGAAGCGTTGCAATATCAGGGGTATCAGGGAA
TCTATCTATTAACCTAAGAGGTGTCTTCGCATTC
						
					

			
		

Sequences
Splice junction sequence	ATGAGATTTCGAGGATTCTTACACGAAATTATCATGAAGCGTTGCAATATCAGGGGTATCAGGG AATCTATCTATTAACCTAAGAGGTGTCTTCGCATTCctttggtgtgccggttgtgccactagtg taacaaatagtggcaacatcttcaggttttggaggacgaaaaggtctagaactcatctttccct gagttgaa
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: 637 Transcript exons: 2137599-2137688,2138431-2138517,2138617-2138661,2139083- 2139159,2139233-2139338,2139494-2139575,2139666-2139737, 2140243-2140320 CTTTGGTGTGCCGGTTGTGCCACTAGTGTAACAAATAGTGGCAACATCTTCAGGTTTTGGAGGA CGAAAAGGTCTAGAACTCATCTTTCCCTGGTTGAGTAGTCTGGAGTAAATTATAATTTCCACTC CAGTAGATGTTGGGGTAGATGGCATATTTGCATTGTCTCCACCAATTACCACTATAAGGCGAAC ACATGGCATTTGAGTTATAAAGCTTAACAGAGTGCTTAGTGTTTGAGGCACACAGAAAATAGCT TCTACTGTCGCATGGTTGACAATGAACTGAACTGCATCTGGACCAAGAGTGTCATAAAGTGGCA CAGACACGAATGAATATGCTGCACAGGCATGATCAACTATGATCCACTCAGGTCTGTTTATAAA ATACAAACCAATGCATGCACCTTCAGGTATTCCATGATAAATAAGACCAGAACCTATTGCAGTC CTGTTTGTACTAGCTTCTCCATATGTCATCCATTTGTAGTCCCCAACTGTTCCATCAGCGCAGA TTCTTGTGCCCAGGTATCTACAGTCCCTAAAGGTCTCAACTGCATACACGAAATTATCATGAAG CGTTGCAATATCAGGGGTATCAGGGAATCTATCTATTAACCTAAGAGGTGTCTTCGCATTC
Genomic sequence	CTTTGGTGTGCCGGTTGTGCCACTAGTGTAACAAATAGTGGCAACATCTTCAGGTTTTGGAGGA CGAAAAGGTCTAGAACTCATCTTTCCCTGAGTTGAAGATTCAAAAGCGATGGAAAAATAGTGAG CAAAAGTGCTAGCAACCTTCAATCTAACACCAAAGATTATGTATATGACTGGATACAGATATGC AGGCATTTGACGCAAAACTTAAAAAGACAATATGTACAGAATGCACATACTATGTGTGTCCATA AGAAAGAAAAATGAAAACGTAGGCACACTGCTCACACAAATATAAGTGGAAACTAGATGCCACA TCAACTTTGTCTGATATGGATAAATCATTTGGAACAAGTCTAAATTTAATCAGAGCAACATACA TGACGGAGTGCAGTCAACTGGTATGCAGTTTGATTCGGTTGACTGAAATTGGAGAACAAATACA TTTTTTGCGTGGAATAGAACAAATACAATGAACAATATATAGTGTTAGTAAACTCATCTGGTGC AGACATCTCTAAAACTATATGAGGTGTTAAGACTAGTATCCCATATACTCCCTCTATCCAAAAA TATAGCAACTTTTAGCATTCTAAGTTTGTCCCAAAATATAGCAACTTCTCCACCTACGTTCTTT TTTCAACCAATCGCAATCTTCCCTCATTTAATTTATCCATCTACTTCCTCTTTTCGATCAATCA AAACCTTCTGCCATTTAACTCCACATACTTCCTTAATACCCTTGTTCAACCCCAAAAGTTCTTA TATTTTGAGATGAAGGTAGTACAATATAGTTTTCAAAAACTGAAGGATCATGTAGCAAATTCAC CTGGTTGAGTAGTCTGGAGTAAATTATAATTTCCACTCCAGTAGATGTTGGGGTAGATGGCATA TTTGCATTGTCTCCACCAATTACCTATACAAAACAAGTTAAGAAAAAAAAAACAGAACAAAGAT TCTTAAAAAATCATGACTGCTCGATTGAACATACTAATTATAAATGGTTCGAACTTACCACTAT AAGGCGAACACATGGCATTTGAGTTATAAAGCTTAACAGCTGCAATAAATAGAGACATATACAT AAGCAAACATAAAAATACTTCATTCCAAAGAATATATCATGATTAAATTAAAGGTACAAACTGA TGTAGTGTTTGAAACAAGGATCAGAATCCACATAAACATATTTCATGGTCAGGGCCCAGCGCTC AGCCCATTGATCATGTGCGTATGTGGATATGGTTAAGAACAAACAGTATGATGAGCATGCAGTT TATGCAGTGTGCAGTCTTTTGACATTGTGTGTTCATAGCAGGATGAGATCAGCACCTGAAAGCA CAGATCTATTTCCTGGAAATAACTAGCTACTTGCCACCTTCAGTAGTTAATGGCTGGTACCAGT GACATGAAAAGTGCAAATTTTAATGATTGTATAAACTAATAACTATACAAGGCTGAGATAAGGG GTTAAAGCTCACAGTGCTTAGTGTTTGAGGCACACAGAAAATAGCTTCTACTGTCGCATGGTTG ACAATGAACTGAACTGCATCTGGACCTGCAGATTACATAAATATTGTTGCTAGATGAATGATAA GGATATAGATGATCATTTGGTGAATAGTGCATACCAAGAGTGTCATAAAGTGGCACAGACACGA ATGAATATGCTGCACAGGCATGATCAACTATGATCCACTCAGGTCTGTTTATAAAATACAAACC AATGCATGCACCCTGGTTCAGAGTTAAAAAAAATAAAGCAAGTTAAAAAAAAAAGGGACTCTCT AAGTGTAAATACAAATGTTATATCATTGTCCATGTGTGACAAGATCTGCCTGCTACTAGTTAAA AAAAGAAGGACGGTACTTGTTGCGACCATTATGACTCACTTCAGGTATTCCATGATAAATAAGA CCAGAACCTATTGCAGTCCTGTTTGTACTAGCTTCTCCATATGTCATCCATTTGTAGCTGCAAA GTTCCATACATATATCATTTAAAAGATTTGAACAAAGCTACAAAAGCCAATAATAACACATATA TCCAGGAACTAATCCTTACTCCCCAACTGTTCCATCAGCGCAGATTCTTGTGCCCAGGTATCTA CAGTCCCTAAAGGTCTCAACTGCATACCTGCGCAATTTGGGGTATATTGCCTCAGAACTTAGCA CAGAACTTAAATTTGAAGAATAATAATTTTCTTGTAAAGCATGTAGCCTGCAACAGATCTAAAT TTATCAGCTTTCATAAAACCATCAGATAAAAACCATCTGCATTCAGGCTGTGGATCTAACAATA GATAAAGGTTAACTCACTTTTCCCTTATAGATACAAACATTTTCCGGCTCCAAGGTTTCAATAA AATAGCTTAAAGAACAGCTTCCCTTGCCAATAATTCTTTTTATGTAATCAGATTTTCCTAAGAA TCCTCCTGATACAATTCATCCTAGGGAAAACAGAACTAGCGTTCATTTTGCTTAACTCTATGTT TGTGCACTCACATGTTTGCTGACAATTCAAAACAAGAATTTGATAAATCATAGCATAACATTTT GTAAATAACTGAGACTTCGCCAAGTTGAGAATAATATTAAGAAATAAAAGCCGGATGCTCAAAT GAGATTTCGAGGATTCTTACACGAAATTATCATGAAGCGTTGCAATATCAGGGGTATCAGGGAA TCTATCTATTAACCTAAGAGGTGTCTTCGCATTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.2248729

Conservation Information
Conserved circRNAs	NA
PMCS	0.2248729

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2139567-2140302(-)
2137647-2140302(-)
						
						Potential amino acid sequence
						
							MTYGEASTNRTAIGSGLIYHGIPEGACIGLYFINRPEWIIVDHACAAYSFVSVPLYDTLGPDAV
QFIVNHATVEAIFCVPQTLSTLLSFITQMPCVRLIVVIGGDNANMPSTPTSTGVEIIIYSRLLN
QGKMSSRPFRPPKPEDVATICYTSGTTGTPKECEDTS*(-)
MLPLFVTLVAQPAHQRNAKTPLRLIDRFPDTPDIATLHDNFVYAVETFRDCRYLGTRICADGTV
GDYKWMTYGEASTNRTAIGSGLIYHGIPEGACIGLYFINRPEWIIVDHACAAYSFVSVPLYDTL
GPDAVQFIVNHATVEAIFCVPQTLSTLLSFITQMPCVRLIVVIGGDNANMPSTPTSTGVEIIIY
SRLLNQGKMSSRPFRPPKPEDVATICYTSGTTGTPKECEDTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2139567-2140302(-) 2137647-2140302(-)
Potential amino acid sequence	MTYGEASTNRTAIGSGLIYHGIPEGACIGLYFINRPEWIIVDHACAAYSFVSVPLYDTLGPDAV QFIVNHATVEAIFCVPQTLSTLLSFITQMPCVRLIVVIGGDNANMPSTPTSTGVEIIIYSRLLN QGKMSSRPFRPPKPEDVATICYTSGTTGTPKECEDTS(-) MLPLFVTLVAQPAHQRNAKTPLRLIDRFPDTPDIATLHDNFVYAVETFRDCRYLGTRICADGTV GDYKWMTYGEASTNRTAIGSGLIYHGIPEGACIGLYFINRPEWIIVDHACAAYSFVSVPLYDTL GPDAVQFIVNHATVEAIFCVPQTLSTLLSFITQMPCVRLIVVIGGDNANMPSTPTSTGVEIIIY SRLLNQGKMSSRPFRPPKPEDVATICYTSGTTGTPKECEDTS(-)
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 Os11g0147050_circ_g.4

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