Plant Circular RNA Database

Detail information of Os03g0784400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0784400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022135
					
						Alias
						Os_ciR8895
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 32556101-32559557  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0784400						
					
						Parent gene annotation
						
							Protein of unknown function DUF1692 domain containing protein. (
Os03t0784400-01);Similar to predicted protein. (Os03t0784400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0784400_circ_g.1 Os03g0784400_circ_g.2 Os03g0784400_circ_g.4 Os03g0784400_circ_g.5 Os03g0784400_circ_g.6 Os03g0784400_circ_g.7 						
					
						Support reads
						2/5
					
						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
						Os03t0784400-02:2
Os03t0784400-01:8

General Information
CircRNA Name	Os03g0784400_circ_g.3
ID in PlantcircBase	osa_circ_022135
Alias	Os_ciR8895
Organism	Oryza sativa
Position	chr3: 32556101-32559557 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0784400
Parent gene annotation	Protein of unknown function DUF1692 domain containing protein. ( Os03t0784400-01);Similar to predicted protein. (Os03t0784400-02)
Parent gene strand	+
Alternative splicing	Os03g0784400_circ_g.1 Os03g0784400_circ_g.2 Os03g0784400_circ_g.4 Os03g0784400_circ_g.5 Os03g0784400_circ_g.6 Os03g0784400_circ_g.7
Support reads	2/5
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	Os03t0784400-02:2 Os03t0784400-01:8

			
						 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  
						
							CTCTCACCAATTACAGTCACAATCAAAGAAGAAAGAAGGAACTTCCTGCATTTCCTCACCCGAC
TATGTGCAGTTCTTGGCGGTACCTTTGCAATGACAGatgtctgtagatctgaaacgaggagaaa
ctctgccaattcatataaatatgtcatttccctctctaccatgtgaaggtcagttattgattaa
atgcatcc

									
								

					

						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
						
							ATGTCTGTAGATCTGAAACGAGGAGAAACTCTGCCAATTCATATAAATATGTCATTTCCCTCTC
TACCATGTGAAGGTCAGTTATTGATTAAATGCATCCTTATCAGTTCGATATGAGGTTTCTTTTC
AACGTTGGTTTGCAAGGAGATTATGGTTTGACCTTTTTCCCCTGGCTCTTTTGTTTAGTCTTGA
GTGTGGATGCAATTGACATGTCTGGCAAGCATGAAGTGGACTTGCATACAAATATTTGGAAGGT
ACCACCTGACATGAACACTTTGTTACTCTGTGACTTAGTGTATGTTCTATAATAGACAAATTCA
GTAGTTGCACTAATTATCCTCATTGCTTATGACGCGGTAATAATAAATCCCTTAATTATGGATA
ATAACACATACTCGCTATCCATGGTGCAGTCATAGTATTCATGCACCTAGAAGGGAACATTTTC
TTTTAGCCGTTGACTGGCAGTGCATGCCTTGCTCTAGTGCAAGCAGTATTCTTCATTTTTACAA
AACAAATATATTTTTTCCCAACAAAAGTTGTACCATAGTATTTTTCTCAATTCAGTATCTGGCA
CTCATATAATGTTTCTAACCTTACCTCTTCTGCTGAATGCAGCTTCGCTTGGATAAGTATGGCC
ATATCATTGGTACGGAGTATTTAAATGATCTAGTTGAGAAGGAGCATGGGACTCACAATCATGG
TATACTCTGCTGCTTCCATAAAGATAAAACTAATGTACACTGAACTGCCATATGAATTATTGTT
GTTTCAGTCCCTAGTGTGTACATTGTTTCCTTCTTTTGCTCACTGTAAATTGCAGCTCGCTAGT
AATAGTTGTTTGCAGTTATAATTGTGGTCCAATTATCCAAACAATACTTTAAGTAATATATTAA
GGACACAGATCTAGGGAAACCCTTGAGACAACAAATTAACTAAATCTATTGACAATATGTTATA
GTCAGAATGTCCCATTTGATGCGCCAACATGCTTTATACTGATTTAGTTAAAATGTCTGATGTG
ATGGAGAAATATGCTTTATTTAGAATGTTCCATTAAGTACGTAGCCTGGAATGGGTTCAAGCAT
GGAAACAGTGTTTCTTAGTAATATAATGTTTGCCTTTCTTAGTATATAAGTTCAAGCAAAAAAG
AAAATTGATTGCAACAATGTGCTATCGAGCTTGCTTTGGTACTTTCTGGAAAGATGTACCAGCC
ACCCAAAAAAAATGGTTCCAATAATTAGCTATTTAGCTTGCTGTCATGGTCAAACATTGTCTTT
GCTGAAAAATTATCATTGGAAAGAATTAATTCTCGTTTCGAGTAACATATGGATTGTCATTTGG
GAAGGTGGGAGGAGGGATGGTGATGTAGAACTTACCATCACTGTCATTAACTCGAATACTTTTA
GTAGAGATAAAAAACAATCAAATCTAGTTATTTTATTGGGATTATCTACTTAAGTAAAAAAAAA
CCCTACCTTATCGCTTCTTAATGTGAAACTTTCCCCTTGAAAACACAGTTTAGTTGACAATCTC
TTGGCGCTTATTTTTCTATACATAATAAGCTAGTGGTTTAACAGATCATGACCATGAGCATGAA
GATGAACAAAAGAAGCAAGAGCACACCTTTAATGAAGATGCAGAAAAAATGGTTAAGAGTGTGA
AACAAGCAATGGAAAATGGTGAAGGGTGCCGAGTAAGATATTTCTCTACCAGTATCCTTTAATT
TATGGAATGGTATTATTAAGGCTATTATCATCAGGCATACCATGTACTTGTTAAAACATTTTGC
TTTCAATTTTCACAGGTTTATGGTGTTCTAGATGTGCAGAGGGTTGCTGGTAACTTCCATATCT
CGGTTCATGGTTTGAACATTTTTGTTGCTGAGAAGGTTATTCATCTAAAACTGCATATTTTTTT
TACTTCTGTGCTTCCATCTGTATGCTTTTTGCTGTGAAATATGTTAATTTCTTTTTGTATGAAG
TTGCCAGGATTATTGTATAAGCTTCTAGGTTTTCAGTTTATGACAGATCATGTTCACAAGGGTT
TAAAATTATTCAACTAAAAATCCCTTCAGAAACTATTGAAACCAGCCAGCTCCTACTTCCTGGT
AATGCCATATTGGACAAGTGCTTTGTGCATCTTGTACAAGACTTCCTAAAACTGTCCACAATTA
GGATAATGTTTTAATGGTAAACAGATGCTAGTGATTACGAGAGAAGGAAAATAACACAACCTAA
TGATAATAATAATAATAAGTTAGCCAGTAAACAACTCAATACTCACCAGTTTGGTGCACACCAG
ATCAAGCTGGGATTGGAACAAAAAAAAGGACGTGGGAAGTATCTTCTTTTGGCCATCACATTAT
ATAATTGTCAGCTTATATGAACCACAATATTTTCTTTACATTGGATGTGCTTATGTCTCTTCGA
TTTTTATGAAAAATATGCATTAAAAAGCAACCACCTAGGTAGCTAGGCGGTGCACTACTGCCTA
AGGCGCCTAATTGATTTATTATGCCGCATAGGTGGCTTGCTAGCCCCGTCTTATGGTGTACTAC
ACTCTGGTATGCCGCCTAACTAGCACATAAAGGCCTCAGTGATTTCAACCTCTTTTTGTGCTAC
CTATAAATAAGTGTTTTATGCTTTTATTTGTATTGTTATTACTCTCTATGTAAATTTTCATTTT
CATCTGTTGTATGTAGATTTTTGATGGGTCAAGCCATGTGAACGTCAGTCATATCATCCATGAT
CTATCCTTTGGTCCAAAATATCCTGGAATTCATAATCCACTGGATGAGACTACAAGGATACTCC
ATGATACAAGTGGGACCTTCAAATACTATATCAAGGTGAGTTTGAGTAGTCATTCATTTAGTAG
TTCATGTCCAGACAGCAATTTGCAAGTTCCAACATGGACAAGGCTTGCGAAAGAGGATGCAATC
ATGAAAATAGAAGTTCACATATATGCATAATTCAAAATCATCTATGGATCCTTGTGGAAAAGAA
CTCCATCCCTCCTCCAACTTTTTTGTCCTTTTGCTACAAACCTATGTAAATCGTTCTTTGGAGC
TGTTTCACCATCAGATCAGATGGAAATCCATCACATTATTTGTTTGAGAAGAAGTGTCCTCATC
TGTTGTAATTGATATGCAGATTGTTCCAACCGAGTACAGATACCTCTCAAAGCAGGTGTTGCCA
ACAAATCAGTTTTCTGTCACCGAGTATTTTGTTCCTAAACGCGCTACTGATAGGTCCGCGTGGC
CAGGTAACTCTCCCTTCACTACAAGCGTGGTATATTCATCTGTTTCCAGGACTAATATGTTTTC
CTTCTGCAGCTGTGTACTTCTTGTATGATCTCTCACCAATTACAGTCACAATCAAAGAAGAAAG
AAGGAACTTCCTGCATTTCCTCACCCGACTATGTGCAGTTCTTGGCGGTACCTTTGCAATGACA
G
						
					

			
		

Sequences
Splice junction sequence	CTCTCACCAATTACAGTCACAATCAAAGAAGAAAGAAGGAACTTCCTGCATTTCCTCACCCGAC TATGTGCAGTTCTTGGCGGTACCTTTGCAATGACAGatgtctgtagatctgaaacgaggagaaa ctctgccaattcatataaatatgtcatttccctctctaccatgtgaaggtcagttattgattaa atgcatcc
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	ATGTCTGTAGATCTGAAACGAGGAGAAACTCTGCCAATTCATATAAATATGTCATTTCCCTCTC TACCATGTGAAGGTCAGTTATTGATTAAATGCATCCTTATCAGTTCGATATGAGGTTTCTTTTC AACGTTGGTTTGCAAGGAGATTATGGTTTGACCTTTTTCCCCTGGCTCTTTTGTTTAGTCTTGA GTGTGGATGCAATTGACATGTCTGGCAAGCATGAAGTGGACTTGCATACAAATATTTGGAAGGT ACCACCTGACATGAACACTTTGTTACTCTGTGACTTAGTGTATGTTCTATAATAGACAAATTCA GTAGTTGCACTAATTATCCTCATTGCTTATGACGCGGTAATAATAAATCCCTTAATTATGGATA ATAACACATACTCGCTATCCATGGTGCAGTCATAGTATTCATGCACCTAGAAGGGAACATTTTC TTTTAGCCGTTGACTGGCAGTGCATGCCTTGCTCTAGTGCAAGCAGTATTCTTCATTTTTACAA AACAAATATATTTTTTCCCAACAAAAGTTGTACCATAGTATTTTTCTCAATTCAGTATCTGGCA CTCATATAATGTTTCTAACCTTACCTCTTCTGCTGAATGCAGCTTCGCTTGGATAAGTATGGCC ATATCATTGGTACGGAGTATTTAAATGATCTAGTTGAGAAGGAGCATGGGACTCACAATCATGG TATACTCTGCTGCTTCCATAAAGATAAAACTAATGTACACTGAACTGCCATATGAATTATTGTT GTTTCAGTCCCTAGTGTGTACATTGTTTCCTTCTTTTGCTCACTGTAAATTGCAGCTCGCTAGT AATAGTTGTTTGCAGTTATAATTGTGGTCCAATTATCCAAACAATACTTTAAGTAATATATTAA GGACACAGATCTAGGGAAACCCTTGAGACAACAAATTAACTAAATCTATTGACAATATGTTATA GTCAGAATGTCCCATTTGATGCGCCAACATGCTTTATACTGATTTAGTTAAAATGTCTGATGTG ATGGAGAAATATGCTTTATTTAGAATGTTCCATTAAGTACGTAGCCTGGAATGGGTTCAAGCAT GGAAACAGTGTTTCTTAGTAATATAATGTTTGCCTTTCTTAGTATATAAGTTCAAGCAAAAAAG AAAATTGATTGCAACAATGTGCTATCGAGCTTGCTTTGGTACTTTCTGGAAAGATGTACCAGCC ACCCAAAAAAAATGGTTCCAATAATTAGCTATTTAGCTTGCTGTCATGGTCAAACATTGTCTTT GCTGAAAAATTATCATTGGAAAGAATTAATTCTCGTTTCGAGTAACATATGGATTGTCATTTGG GAAGGTGGGAGGAGGGATGGTGATGTAGAACTTACCATCACTGTCATTAACTCGAATACTTTTA GTAGAGATAAAAAACAATCAAATCTAGTTATTTTATTGGGATTATCTACTTAAGTAAAAAAAAA CCCTACCTTATCGCTTCTTAATGTGAAACTTTCCCCTTGAAAACACAGTTTAGTTGACAATCTC TTGGCGCTTATTTTTCTATACATAATAAGCTAGTGGTTTAACAGATCATGACCATGAGCATGAA GATGAACAAAAGAAGCAAGAGCACACCTTTAATGAAGATGCAGAAAAAATGGTTAAGAGTGTGA AACAAGCAATGGAAAATGGTGAAGGGTGCCGAGTAAGATATTTCTCTACCAGTATCCTTTAATT TATGGAATGGTATTATTAAGGCTATTATCATCAGGCATACCATGTACTTGTTAAAACATTTTGC TTTCAATTTTCACAGGTTTATGGTGTTCTAGATGTGCAGAGGGTTGCTGGTAACTTCCATATCT CGGTTCATGGTTTGAACATTTTTGTTGCTGAGAAGGTTATTCATCTAAAACTGCATATTTTTTT TACTTCTGTGCTTCCATCTGTATGCTTTTTGCTGTGAAATATGTTAATTTCTTTTTGTATGAAG TTGCCAGGATTATTGTATAAGCTTCTAGGTTTTCAGTTTATGACAGATCATGTTCACAAGGGTT TAAAATTATTCAACTAAAAATCCCTTCAGAAACTATTGAAACCAGCCAGCTCCTACTTCCTGGT AATGCCATATTGGACAAGTGCTTTGTGCATCTTGTACAAGACTTCCTAAAACTGTCCACAATTA GGATAATGTTTTAATGGTAAACAGATGCTAGTGATTACGAGAGAAGGAAAATAACACAACCTAA TGATAATAATAATAATAAGTTAGCCAGTAAACAACTCAATACTCACCAGTTTGGTGCACACCAG ATCAAGCTGGGATTGGAACAAAAAAAAGGACGTGGGAAGTATCTTCTTTTGGCCATCACATTAT ATAATTGTCAGCTTATATGAACCACAATATTTTCTTTACATTGGATGTGCTTATGTCTCTTCGA TTTTTATGAAAAATATGCATTAAAAAGCAACCACCTAGGTAGCTAGGCGGTGCACTACTGCCTA AGGCGCCTAATTGATTTATTATGCCGCATAGGTGGCTTGCTAGCCCCGTCTTATGGTGTACTAC ACTCTGGTATGCCGCCTAACTAGCACATAAAGGCCTCAGTGATTTCAACCTCTTTTTGTGCTAC CTATAAATAAGTGTTTTATGCTTTTATTTGTATTGTTATTACTCTCTATGTAAATTTTCATTTT CATCTGTTGTATGTAGATTTTTGATGGGTCAAGCCATGTGAACGTCAGTCATATCATCCATGAT CTATCCTTTGGTCCAAAATATCCTGGAATTCATAATCCACTGGATGAGACTACAAGGATACTCC ATGATACAAGTGGGACCTTCAAATACTATATCAAGGTGAGTTTGAGTAGTCATTCATTTAGTAG TTCATGTCCAGACAGCAATTTGCAAGTTCCAACATGGACAAGGCTTGCGAAAGAGGATGCAATC ATGAAAATAGAAGTTCACATATATGCATAATTCAAAATCATCTATGGATCCTTGTGGAAAAGAA CTCCATCCCTCCTCCAACTTTTTTGTCCTTTTGCTACAAACCTATGTAAATCGTTCTTTGGAGC TGTTTCACCATCAGATCAGATGGAAATCCATCACATTATTTGTTTGAGAAGAAGTGTCCTCATC TGTTGTAATTGATATGCAGATTGTTCCAACCGAGTACAGATACCTCTCAAAGCAGGTGTTGCCA ACAAATCAGTTTTCTGTCACCGAGTATTTTGTTCCTAAACGCGCTACTGATAGGTCCGCGTGGC CAGGTAACTCTCCCTTCACTACAAGCGTGGTATATTCATCTGTTTCCAGGACTAATATGTTTTC CTTCTGCAGCTGTGTACTTCTTGTATGATCTCTCACCAATTACAGTCACAATCAAAGAAGAAAG AAGGAACTTCCTGCATTTCCTCACCCGACTATGTGCAGTTCTTGGCGGTACCTTTGCAATGACA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013723 						
					
						PMCS
						0.110325603

Conservation Information
Conserved circRNAs	osi_circ_013723
PMCS	0.110325603

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32556102-32556171(+)
32556172-32559308(-)
32556144-32559515(-)
						
						Potential amino acid sequence
						
							MSVDLKRGETLPIHINMSFPSLPCEVLSVDAIDMSGKHEVDLHTNIWKLRLDKYGHIIGTEYLN
DLVEKEHGTHNHDHDHEHEDEQKKQEHTFNEDAEKMVKSVKQAMENGEGCRVYGVLDVQRVAGN
FHISVHGLNIFVAEKIFDGSSHVNVSHIIHDLSFGPKYPGIHNPLDETTRILHDTSGTFKYYIK
IVPTEYRYLSKQVLPTNQFSVTEYFVPKRATDRSAWPAVYFLYDLSPITVTIKEERRNFLHFLT
RLCAVLGGTFAMTDVCRSETRRNSANSYKYVISLSTM*(+)
MVEREMTYLYELAEFLLVSDLQTSVIAKVPPRTAHSRVRKCRKFLLSSLIVTVIGERSYKKYTA
GHADLSVARLGTKYSVTEN*(-)
MNWQSFSSFQIYRHLSLQRYRQELHIVG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32556102-32556171(+) 32556172-32559308(-) 32556144-32559515(-)
Potential amino acid sequence	MSVDLKRGETLPIHINMSFPSLPCEVLSVDAIDMSGKHEVDLHTNIWKLRLDKYGHIIGTEYLN DLVEKEHGTHNHDHDHEHEDEQKKQEHTFNEDAEKMVKSVKQAMENGEGCRVYGVLDVQRVAGN FHISVHGLNIFVAEKIFDGSSHVNVSHIIHDLSFGPKYPGIHNPLDETTRILHDTSGTFKYYIK IVPTEYRYLSKQVLPTNQFSVTEYFVPKRATDRSAWPAVYFLYDLSPITVTIKEERRNFLHFLT RLCAVLGGTFAMTDVCRSETRRNSANSYKYVISLSTM(+) MVEREMTYLYELAEFLLVSDLQTSVIAKVPPRTAHSRVRKCRKFLLSSLIVTVIGERSYKKYTA GHADLSVARLGTKYSVTEN(-) MNWQSFSSFQIYRHLSLQRYRQELHIVG*(-)
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 Os03g0784400_circ_g.3

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