Plant Circular RNA Database

Detail information of Os03g0173900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0173900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018152
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 3962102-3964358  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0173900						
					
						Parent gene annotation
						
							Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os03
t0173900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0173900_circ_g.2 						
					
						Support reads
						4
					
						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
						Os03t0173900-01:4

General Information
CircRNA Name	Os03g0173900_circ_g.1
ID in PlantcircBase	osa_circ_018152
Alias	NA
Organism	Oryza sativa
Position	chr3: 3962102-3964358 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0173900
Parent gene annotation	Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os03 t0173900-01)
Parent gene strand	+
Alternative splicing	Os03g0173900_circ_g.2
Support reads	4
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	Os03t0173900-01:4

			
						 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  
						
							GGCTCATGCCTCCAATCAAATCACTGAAAATCATTACTGTTGTTAATATTTGCAGGTCATTTGG
CAAGACAACATTGATCCTGACAATATGACATATGAGgttcatgatccatcagaaggaatgaacg
ggagtcggcagatggagctgcactacataaatactggatttccatacaccatcaccgagagctt
catggatt

									
								

					

						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
						
							GTTCATGATCCATCAGAAGGAATGAACGGGAGTCGGCAGATGGAGCTGCACTACATAAATACTG
GATTTCCATACACCATCACCGAGAGCTTCATGGATTTCTTTGAGGGCCTCACATATGCTCATGC
TGATTTTGCTATTGCAGATGCTTTCCATGATCAGGTGCCAATTACAGGGCTGTCATTATTCTTA
ATAGATCTTATCCAACTACTAGTTTATTCTACCACGATGTACCCTTTGTTTATCTTAAGATGTA
TATTTGCCATGGAATATTAAGTGACTTGTGTCCTGGGTAATGTCCCTCTTTACATATCTCCAGT
TGCATTGCAAATCGTGTTTGTTTGTTTCAAAATTCTTTTGGTGAATTTCATGAAACCTCACTCT
CCACATAACTCACAAAAGCACTCAAGCTAGGATATTAATCAGAATGAATATAATGGTTTCAATC
ATAACCTTAACCTCTGATCCACTATCATTATCCGTTTATTTACTCTTATTTGCTCATAATGTGC
AGGCTAATCCATACTGGGCAATGATGCATACAAACTCGTACAAGTATGGATATTCCGGTGCAGG
AAATTATTACAGTTATGGGCATGTTTATGATATGAATGATTACATGCATAGGGCAGATGGTGGA
CGCAGAATCTGGGATAATGCTACACCTGTAAACAACACTGAATCCCCAAATGTAGTCTTGCAGG
GTGGAGAAACTCCTCATGCAAATACAAGCTCTACTACTGAGGAATGTAAGTGCAAGTTCACAAT
CCATTATCACTTCTAGTCATTTTAAGTCATAAAAAAGGAACACTGGTAGGCGTATCATTTTTTT
TAATATTCATTACCAACACGAAATCAGCTACAGGACCATCTCTGGTTAGGGTGCTGAGAATCAA
TTACGACGTATTTCAAATGAGCACCTTCAACTTCTTGTGGTCTACAGTGGAAAATTATTTTGGG
GTCTGAAATAATTCTACATGTTTCTCCTTTTAATTTCCAATAAACTCAAGTCTGCTCTTGTCAA
GCTGATTCCTCTGATTTCACTGGTTTAATTCATTTGGATATCTTTTAGTTGTAAAGTTGTTCTT
CTTTGCAAGTCGAAACACATTCAGTTAATGCGGCTATTCATGAGTTCCAGACTTCCAGTGTTTT
ATAGTATGGTTCGTTACATCTAAATCAAATCATAAAATATTACTCTTGTTAGCATTTCCTTACT
AAGAGGACAACAAACACATACACATACTCATGGTTCTACAATAATGAAGAAAAGGCGACCTTTC
TGTTGATGGAAGCAATGGCATCATTTCTACCTTTGCTCACTTACTGTCATATGGCAAGAAATAT
TTATTTGTGTATGATTGTGTTCAGCATTGTATAACTGAAAATTTTGTTTTAACATGGTAACACC
TAAGTAGATGCTCACTAAAAAGGATAAGTGATGAGTTTCTTAATGCTTTTGCCATCGTTTTTTT
TTTTTGCTCCTCAAGTGTTATTGACTTGTTTCATTGTACACCCATGAGTTGTTCTAACAGCTTG
GTTATGATACCGAAAGATTATTTTGGCAAGCATACACGTGAAATAAGTCCTAAGAACTGTCTAT
GTTATGTGTTAAAACTGTATGCATTTACCTGGAACTTGAATTGTAACTGAACCTTTATAGAATT
TGCACCTTGTCTTTCAAGTCAAGTAACTGAATTGAACTTTATTTTGGCTCACTGATTTTGCTTT
CACTTGCAGGTATCCAACAACAAGTACACCAGAATTCGAGCAGTCCACAGGTACATGAGTATTT
CAAGCATGTTTATCTTTTCCTAACTTTTATTTTCCATGCAAATGCATTTTTCCACTTATGATTT
CAGGCTTTACGTGCAAAATGCCTTTTACATGGTTCCACCTATCTTAACGATTCCAAGTCAAATG
ATTTTATTTCTTTGACTATATTATATGCCATAAAAATTTAGCTAATAAAATTATTTGTTTTTCA
CCTATCAATTTGCATCCACATTCTATATGCTATAGAATTGTATTCTTTTGTTGCATGTATAAGA
TGCAAACTTTTGATCTCATTCATCCAGAGGGTGATGAGATATGATCGCTGTAATTTTTAGCATG
TGTTATGTGATGTCACTTACCTGCTGTGTGTTGATATTTGTTCTGGGCTCATGCCTCCAATCAA
ATCACTGAAAATCATTACTGTTGTTAATATTTGCAGGTCATTTGGCAAGACAACATTGATCCTG
ACAATATGACATATGAG
						
					

			
		

Sequences
Splice junction sequence	GGCTCATGCCTCCAATCAAATCACTGAAAATCATTACTGTTGTTAATATTTGCAGGTCATTTGG CAAGACAACATTGATCCTGACAATATGACATATGAGgttcatgatccatcagaaggaatgaacg ggagtcggcagatggagctgcactacataaatactggatttccatacaccatcaccgagagctt catggatt
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	GTTCATGATCCATCAGAAGGAATGAACGGGAGTCGGCAGATGGAGCTGCACTACATAAATACTG GATTTCCATACACCATCACCGAGAGCTTCATGGATTTCTTTGAGGGCCTCACATATGCTCATGC TGATTTTGCTATTGCAGATGCTTTCCATGATCAGGTGCCAATTACAGGGCTGTCATTATTCTTA ATAGATCTTATCCAACTACTAGTTTATTCTACCACGATGTACCCTTTGTTTATCTTAAGATGTA TATTTGCCATGGAATATTAAGTGACTTGTGTCCTGGGTAATGTCCCTCTTTACATATCTCCAGT TGCATTGCAAATCGTGTTTGTTTGTTTCAAAATTCTTTTGGTGAATTTCATGAAACCTCACTCT CCACATAACTCACAAAAGCACTCAAGCTAGGATATTAATCAGAATGAATATAATGGTTTCAATC ATAACCTTAACCTCTGATCCACTATCATTATCCGTTTATTTACTCTTATTTGCTCATAATGTGC AGGCTAATCCATACTGGGCAATGATGCATACAAACTCGTACAAGTATGGATATTCCGGTGCAGG AAATTATTACAGTTATGGGCATGTTTATGATATGAATGATTACATGCATAGGGCAGATGGTGGA CGCAGAATCTGGGATAATGCTACACCTGTAAACAACACTGAATCCCCAAATGTAGTCTTGCAGG GTGGAGAAACTCCTCATGCAAATACAAGCTCTACTACTGAGGAATGTAAGTGCAAGTTCACAAT CCATTATCACTTCTAGTCATTTTAAGTCATAAAAAAGGAACACTGGTAGGCGTATCATTTTTTT TAATATTCATTACCAACACGAAATCAGCTACAGGACCATCTCTGGTTAGGGTGCTGAGAATCAA TTACGACGTATTTCAAATGAGCACCTTCAACTTCTTGTGGTCTACAGTGGAAAATTATTTTGGG GTCTGAAATAATTCTACATGTTTCTCCTTTTAATTTCCAATAAACTCAAGTCTGCTCTTGTCAA GCTGATTCCTCTGATTTCACTGGTTTAATTCATTTGGATATCTTTTAGTTGTAAAGTTGTTCTT CTTTGCAAGTCGAAACACATTCAGTTAATGCGGCTATTCATGAGTTCCAGACTTCCAGTGTTTT ATAGTATGGTTCGTTACATCTAAATCAAATCATAAAATATTACTCTTGTTAGCATTTCCTTACT AAGAGGACAACAAACACATACACATACTCATGGTTCTACAATAATGAAGAAAAGGCGACCTTTC TGTTGATGGAAGCAATGGCATCATTTCTACCTTTGCTCACTTACTGTCATATGGCAAGAAATAT TTATTTGTGTATGATTGTGTTCAGCATTGTATAACTGAAAATTTTGTTTTAACATGGTAACACC TAAGTAGATGCTCACTAAAAAGGATAAGTGATGAGTTTCTTAATGCTTTTGCCATCGTTTTTTT TTTTTGCTCCTCAAGTGTTATTGACTTGTTTCATTGTACACCCATGAGTTGTTCTAACAGCTTG GTTATGATACCGAAAGATTATTTTGGCAAGCATACACGTGAAATAAGTCCTAAGAACTGTCTAT GTTATGTGTTAAAACTGTATGCATTTACCTGGAACTTGAATTGTAACTGAACCTTTATAGAATT TGCACCTTGTCTTTCAAGTCAAGTAACTGAATTGAACTTTATTTTGGCTCACTGATTTTGCTTT CACTTGCAGGTATCCAACAACAAGTACACCAGAATTCGAGCAGTCCACAGGTACATGAGTATTT CAAGCATGTTTATCTTTTCCTAACTTTTATTTTCCATGCAAATGCATTTTTCCACTTATGATTT CAGGCTTTACGTGCAAAATGCCTTTTACATGGTTCCACCTATCTTAACGATTCCAAGTCAAATG ATTTTATTTCTTTGACTATATTATATGCCATAAAAATTTAGCTAATAAAATTATTTGTTTTTCA CCTATCAATTTGCATCCACATTCTATATGCTATAGAATTGTATTCTTTTGTTGCATGTATAAGA TGCAAACTTTTGATCTCATTCATCCAGAGGGTGATGAGATATGATCGCTGTAATTTTTAGCATG TGTTATGTGATGTCACTTACCTGCTGTGTGTTGATATTTGTTCTGGGCTCATGCCTCCAATCAA ATCACTGAAAATCATTACTGTTGTTAATATTTGCAGGTCATTTGGCAAGACAACATTGATCCTG ACAATATGACATATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.115568476

Conservation Information
Conserved circRNAs	NA
PMCS	0.115568476

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3962124-3964355(+)
3962109-3962116(-)
3962176-3964317(-)
						
						Potential amino acid sequence
						
							MNGSRQMELHYINTGFPYTITESFMDFFEGLTYAHADFAIADAFHDQANPYWAMMHTNSYKYGY
SGAGNYYSYGHVYDMNDYMHRADGGRRIWDNATPVNNTESPNVVLQGGETPHANTSSTTEECIQ
QQVHQNSSSPQVIWQDNIDPDNMTYEVHDPSEGMNGSRQMELHYINTGFPYTITESFMDFFEGL
TYAHADFAIADAFHDQANPYWAMMHTNSYKYGYSGAGNYYSYGHVYDMNDYMHRADGGRRIWDN
ATPVNNTESPNVVLQGGETPHANTSSTTEECIQQQVHQNSSSPQVIWQDNIDPDNMTYEVHDPS
EGMNGSRQMELHYINTGFPYTITESFMDFFEGLTYAHADFAIADAFHDQANPYWAMMHTNSYKY
GYSGAGNYYSYGHVYDMNDYMHRADGGRRIWDNATPVNNTESPNVVLQGGETPHANTSSTTEEC
IQQQVHQNSSSPQVIWQDNIDPDNMTYEVHDPSEGMNGSRQMELHYINTGFPYTITESFMDFFE
GLTYAHADFAIADAFHDQANPYWAMMHTNSYKYGYSGAGNYYSYGHVYDMNDYMHRADGGRRIW
DNATPVNNTESPNVVLQGGETPHANTSSTTEECIQQQVHQNSSSPQVIWQDNIDPDNMTYE(+)
MNLICHIVRINVVLPNDLWTARILVYLLLDTFLSSRACICMRSFSTLQDYIWGFSVVYRCSIIP
DSASTICPMHVIIHIINMPITVIISCTGISILVRVCMHHCPVWISLIMESICNSKISMSICEAL
KEIHEALGDGVWKSSIYVVQLHLPTPVHSF*(-)
MEIQYLCSAAPSADSRSFLLMDHEPHMSYCQDQCCLAK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3962124-3964355(+) 3962109-3962116(-) 3962176-3964317(-)
Potential amino acid sequence	MNGSRQMELHYINTGFPYTITESFMDFFEGLTYAHADFAIADAFHDQANPYWAMMHTNSYKYGY SGAGNYYSYGHVYDMNDYMHRADGGRRIWDNATPVNNTESPNVVLQGGETPHANTSSTTEECIQ QQVHQNSSSPQVIWQDNIDPDNMTYEVHDPSEGMNGSRQMELHYINTGFPYTITESFMDFFEGL TYAHADFAIADAFHDQANPYWAMMHTNSYKYGYSGAGNYYSYGHVYDMNDYMHRADGGRRIWDN ATPVNNTESPNVVLQGGETPHANTSSTTEECIQQQVHQNSSSPQVIWQDNIDPDNMTYEVHDPS EGMNGSRQMELHYINTGFPYTITESFMDFFEGLTYAHADFAIADAFHDQANPYWAMMHTNSYKY GYSGAGNYYSYGHVYDMNDYMHRADGGRRIWDNATPVNNTESPNVVLQGGETPHANTSSTTEEC IQQQVHQNSSSPQVIWQDNIDPDNMTYEVHDPSEGMNGSRQMELHYINTGFPYTITESFMDFFE GLTYAHADFAIADAFHDQANPYWAMMHTNSYKYGYSGAGNYYSYGHVYDMNDYMHRADGGRRIW DNATPVNNTESPNVVLQGGETPHANTSSTTEECIQQQVHQNSSSPQVIWQDNIDPDNMTYE(+) MNLICHIVRINVVLPNDLWTARILVYLLLDTFLSSRACICMRSFSTLQDYIWGFSVVYRCSIIP DSASTICPMHVIIHIINMPITVIISCTGISILVRVCMHHCPVWISLIMESICNSKISMSICEAL KEIHEALGDGVWKSSIYVVQLHLPTPVHSF(-) MEIQYLCSAAPSADSRSFLLMDHEPHMSYCQDQCCLAK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0173900_circ_g.1

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