Plant Circular RNA Database

Detail information of Os01g0778700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0778700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_004182
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 32958803-32961707  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0778700						
					
						Parent gene annotation
						
							Similar to Transmembrane protein 49. (Os01t0778700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0778700_circ_g.2 Os01g0778700_circ_g.3 Os01g0778700_circ_g.4 Os01g0778700_circ_g.5 						
					
						Support reads
						1
					
						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
						Os01t0778700-01:5

General Information
CircRNA Name	Os01g0778700_circ_g.1
ID in PlantcircBase	osa_circ_004182
Alias	NA
Organism	Oryza sativa
Position	chr1: 32958803-32961707 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0778700
Parent gene annotation	Similar to Transmembrane protein 49. (Os01t0778700-01)
Parent gene strand	+
Alternative splicing	Os01g0778700_circ_g.2 Os01g0778700_circ_g.3 Os01g0778700_circ_g.4 Os01g0778700_circ_g.5
Support reads	1
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	Os01t0778700-01:5

			
						 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  
						
							TGACCTTGCTGGTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTACT
TTGATTGGGAAGGCCATCATCAAGACCCATATTCAGaaatccgtgagaaacacaaattggaact
ggagaatttgacactaacaaagcatccattcaggacattacgttttttcatgttagctatgttg
caatactt

									
								

					

						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: 869
Transcript exons: 32958803-32959014,32959150-32959226,32959999-32960303,32
960887-32961044,32961591-32961707
AAATCCGTGAGAAACACAAATTGGAACTGGAGAATTTGACACTAACAAAGCATCCATTCAGGAC
ATTACGTTTTTTCATGTTAGCTATGTTGCAATACTTGAAAAGATTAGCAACATATATCCTGAGT
AAGGGTGCTTTGTTTGTTGTCCTCATTGTGTTGGTGCTAGCTCCTGGAATTTTACTTGCGGTTA
CAGATGGTCTGCATAAAAAGCATGTGCAGGAGTTCCTGAATTATGCTAGATTTGTGTTGTGGTG
GGTTTCACTAGGCGTGGCTTCGTCAATTGGACTAGGTTCAGGTTTGCATACATTTGTTCTGTAT
CTGGGCCCTCATATTGCCCTCTTCACTATTAAGGCTGTTCAATGTGGTCGGATTGATTTGAAAA
CTGCTCCATACGATACCATACAGCTTAAGCAAGGGCCATCATGGCTGGACAAGAAGTGTTCAGA
TTTTGGACCACCAGTGTACCAAGCATCGGCTCATTCTGTCCGGATCCCAGTCTTTGAATTACTC
CCTCAGGTTCAGCTGGAAGCTGTTCTTTGGGGCATTGGCACAGCGCTTGGGGAGCTCCCTCCTT
ATTTTATATCACGAGCTGCTCGTTTGTCAGGAAGTGAACCAGAAGCTGTGAAGGAGCTGGATGC
TGCTGCTTCGGATGAACATGGTCCAATAGCATCCACTCTCAATCGAACAAAACGCTGGCTCCTT
TCCCACTCTCAGCATCTCAACTTCATTACTATCTTGATTCTTGCTTCGGTTCCAAACCCACTGT
TTGACCTTGCTGGTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTAC
TTTGATTGGGAAGGCCATCATCAAGACCCATATTCAG
						
					

						Genomic sequence
						
							AAATCCGTGAGAAACACAAATTGGAACTGGAGAATTTGACACTAACAAAGCATCCATTCAGGAC
ATTACGTTTTTTCATGTTAGCTATGTTGCAATACTTGAAAAGATTAGCAACATATATCCTGAGT
AAGGGTGCTTTGTTTGTTGTCCTCATTGTGTTGGTGCTAGCTCCTGGAATTTTACTTGCGGTTA
CAGATGGTCTGCATAAAAAGGTGTGTTACTTCACTGTAATTTGATTACGATCGCAGTGCTTGTG
CTGATAAGAGTAGACATGACAATAAGGGCACTGATTTATTATGTTAGCTTCTTGTGGTGTGCTT
GAATACTGATTTTGTTTTCTGATGCAGCATGTGCAGGAGTTCCTGAATTATGCTAGATTTGTGT
TGTGGTGGGTTTCACTAGGCGTGGCTTCGTCAATTGGACTAGGCAAGTGTTACTAGCATCTGTC
AAATTTATGACATACCATTATATATATGGAAGTAAATAATGTGCCACTGTACTTTATTTTATAT
CCTTTCTAGTTCTATAATATTTTTAGCTGATGTTTCTTATACACTGTTGAAAGTGACTAAAGCA
CATGCTAACCATGATTTAGTTAGGAAGAGATGAACATAAGAAAAAAAACAATGATTGTTTTCAT
TTTATTAGTTATTACTTACCTAGAAACTCTATCATATCAGGAAAATTTTAACAACAAAATCACA
TTAAATTTATGTACTATGACTTCATTGAACCTTTAAAAAATCTTCTAAAAACTCGTATTGGGCT
AGAAGAGCAAAAGGCACACCATCGCCAAATTACACACTAAAGTTACTTTGAGATTTAATGCATT
GGGATAAAGTTTCGCAATTACAGGGCTACTGCTGCAATTAGCCTTTTACTTTCCAATCTAGAGA
AAGGTATCTCAGCGTTCTTTTGAGCAGAATTTGTGGATATTCAGAATTCCAGATAATTCTGTAG
TATCATTTTGACCAGCTACTGGAAATTTCTTTGGTTAACTTTTAGGGGCTTAGAGGTGTAAAAG
CATATACCACCAGCAAATATTAAGTGATGCTTTTTTAGTTTTTATTGGCTTGAGGCTTGTTGCA
ATGGATGCTCTTCTGGTTTAATGACTTTCAAATTTGGAAATTTTGAACTTCGGATGAAAATGAG
CTCATCCTTTTTTTTACTAACTAAGATTAATATCTTTGAAATTCAGGTTCAGGTTTGCATACAT
TTGTTCTGTATCTGGGCCCTCATATTGCCCTCTTCACTATTAAGGCTGTTCAATGTGGTCGGAT
TGATTTGAAAACTGCTCCATACGATACCATACAGCTTAAGCAAGGGCCATCATGGCTGGACAAG
AAGTGTTCAGATTTTGGACCACCAGTGTACCAAGCATCGGCTCATTCTGTCCGGATCCCAGTCT
TTGAATTACTCCCTCAGGTTCAGCTGGAAGCTGTTCTTTGGGGCATTGGCACAGCGCTTGGGGA
GCTCCCTCCTTATTTTATATCACGAGCTGGTAATATGGCATAACGCTTATTTCTTAAGTAAAGA
AGCTTAGCTATATGCTTTACACTTTCTCACGTCTCAGTACTGGTGAACCTATGTAATTGTACAC
ATGATTTACTCTGCTTTCTATTATTTTTTTTTATGAATTGACTTTCCTTGCACACTATATAACT
GCATCTCATCAATTTTAGTACCACACAACTAAAATATATGGTCCACCATTACTGTATATAGTTC
TTCAACTTCAATAATGCTCCCTCCATTTCTGTTTGTCATCTTTGACCACCTTTTGTGTTTGAGA
ACAATTGTCACCACATTTTTAAAGTTCAGGTTGCCTACTTTGTCCTTTTGTGGGCTTAATAATG
AATTTAACCATACAATTTTATTAACTTTGTATCTTGACATCTTATGAATCCCTTGATTTTGCTT
GTTATTTTTTAGCCATAAATTAGGGCTGTGGTGGAAACTTCGGTTAGTGTTGTGATAAATTCTA
GAAGATCGATTGTGTTGGCCCATGCATTAATTTCTGAATTTGGTTCCTGTCTCTTTTGTCATAT
TCAACCACACCAAGTAAATGATGTGTCGTGTTGCAGCTCGTTTGTCAGGAAGTGAACCAGAAGC
TGTGAAGGAGCTGGATGCTGCTGCTTCGGATGAACATGGTCCAATAGCATCCACTCTCAATCGA
ACAAAACGCTGGCTCCTTTCCCACTCTCAGCATCTCAACTTCATTACTATCTTGATTCTTGCTT
CGGTTAGTCTATGTCCTTTTCCCATCTTGTCATGCCAATTTATTTGTAGCAGTAAGGATTTTCT
TGCAAAAACTACATATAAGGATTCTCTAGCAAACATGCAAGCTACTATTCATTTGGGCCTCTTT
CTCGAGTCATGCCTACTGCTCTGAACATAGATAGCTCATGCATCTTTAAAAGAGGGAGCTGGAG
TTGATGGTAGGTTCTACACCCATCCAACTCCGGATCTTCTGTAACTGCAAATATGTGTAGGCGT
GTGTCATGTGTGTTTGCATCTTTGCTCATATAATTATGTATATTGTATACAAGTTTTAGAGAGG
ATAATTATTTTTTATGCATTTTATATTTTTAGACTTATAGTATATTAGTTATGATCTGCTGCAA
TGCATGCATGATGCTAATGGTGCTAAAAAAAGTTGAAGCGGACATTCTCCGTATCAATGCCATA
GCTAACAGATGGTGGTGATATGGAGAATCTTGGTTCTTTTGTACTAACATCTGATGGATAAATA
ATTTACCATACAATGAATTTTCTTTGTGCTTACTAGGTTCCAAACCCACTGTTTGACCTTGCTG
GTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTACTTTGATTGGGAA
GGCCATCATCAAGACCCATATTCAG
						
					

			
		

Sequences
Splice junction sequence	TGACCTTGCTGGTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTACT TTGATTGGGAAGGCCATCATCAAGACCCATATTCAGaaatccgtgagaaacacaaattggaact ggagaatttgacactaacaaagcatccattcaggacattacgttttttcatgttagctatgttg caatactt
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: 869 Transcript exons: 32958803-32959014,32959150-32959226,32959999-32960303,32 960887-32961044,32961591-32961707 AAATCCGTGAGAAACACAAATTGGAACTGGAGAATTTGACACTAACAAAGCATCCATTCAGGAC ATTACGTTTTTTCATGTTAGCTATGTTGCAATACTTGAAAAGATTAGCAACATATATCCTGAGT AAGGGTGCTTTGTTTGTTGTCCTCATTGTGTTGGTGCTAGCTCCTGGAATTTTACTTGCGGTTA CAGATGGTCTGCATAAAAAGCATGTGCAGGAGTTCCTGAATTATGCTAGATTTGTGTTGTGGTG GGTTTCACTAGGCGTGGCTTCGTCAATTGGACTAGGTTCAGGTTTGCATACATTTGTTCTGTAT CTGGGCCCTCATATTGCCCTCTTCACTATTAAGGCTGTTCAATGTGGTCGGATTGATTTGAAAA CTGCTCCATACGATACCATACAGCTTAAGCAAGGGCCATCATGGCTGGACAAGAAGTGTTCAGA TTTTGGACCACCAGTGTACCAAGCATCGGCTCATTCTGTCCGGATCCCAGTCTTTGAATTACTC CCTCAGGTTCAGCTGGAAGCTGTTCTTTGGGGCATTGGCACAGCGCTTGGGGAGCTCCCTCCTT ATTTTATATCACGAGCTGCTCGTTTGTCAGGAAGTGAACCAGAAGCTGTGAAGGAGCTGGATGC TGCTGCTTCGGATGAACATGGTCCAATAGCATCCACTCTCAATCGAACAAAACGCTGGCTCCTT TCCCACTCTCAGCATCTCAACTTCATTACTATCTTGATTCTTGCTTCGGTTCCAAACCCACTGT TTGACCTTGCTGGTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTAC TTTGATTGGGAAGGCCATCATCAAGACCCATATTCAG
Genomic sequence	AAATCCGTGAGAAACACAAATTGGAACTGGAGAATTTGACACTAACAAAGCATCCATTCAGGAC ATTACGTTTTTTCATGTTAGCTATGTTGCAATACTTGAAAAGATTAGCAACATATATCCTGAGT AAGGGTGCTTTGTTTGTTGTCCTCATTGTGTTGGTGCTAGCTCCTGGAATTTTACTTGCGGTTA CAGATGGTCTGCATAAAAAGGTGTGTTACTTCACTGTAATTTGATTACGATCGCAGTGCTTGTG CTGATAAGAGTAGACATGACAATAAGGGCACTGATTTATTATGTTAGCTTCTTGTGGTGTGCTT GAATACTGATTTTGTTTTCTGATGCAGCATGTGCAGGAGTTCCTGAATTATGCTAGATTTGTGT TGTGGTGGGTTTCACTAGGCGTGGCTTCGTCAATTGGACTAGGCAAGTGTTACTAGCATCTGTC AAATTTATGACATACCATTATATATATGGAAGTAAATAATGTGCCACTGTACTTTATTTTATAT CCTTTCTAGTTCTATAATATTTTTAGCTGATGTTTCTTATACACTGTTGAAAGTGACTAAAGCA CATGCTAACCATGATTTAGTTAGGAAGAGATGAACATAAGAAAAAAAACAATGATTGTTTTCAT TTTATTAGTTATTACTTACCTAGAAACTCTATCATATCAGGAAAATTTTAACAACAAAATCACA TTAAATTTATGTACTATGACTTCATTGAACCTTTAAAAAATCTTCTAAAAACTCGTATTGGGCT AGAAGAGCAAAAGGCACACCATCGCCAAATTACACACTAAAGTTACTTTGAGATTTAATGCATT GGGATAAAGTTTCGCAATTACAGGGCTACTGCTGCAATTAGCCTTTTACTTTCCAATCTAGAGA AAGGTATCTCAGCGTTCTTTTGAGCAGAATTTGTGGATATTCAGAATTCCAGATAATTCTGTAG TATCATTTTGACCAGCTACTGGAAATTTCTTTGGTTAACTTTTAGGGGCTTAGAGGTGTAAAAG CATATACCACCAGCAAATATTAAGTGATGCTTTTTTAGTTTTTATTGGCTTGAGGCTTGTTGCA ATGGATGCTCTTCTGGTTTAATGACTTTCAAATTTGGAAATTTTGAACTTCGGATGAAAATGAG CTCATCCTTTTTTTTACTAACTAAGATTAATATCTTTGAAATTCAGGTTCAGGTTTGCATACAT TTGTTCTGTATCTGGGCCCTCATATTGCCCTCTTCACTATTAAGGCTGTTCAATGTGGTCGGAT TGATTTGAAAACTGCTCCATACGATACCATACAGCTTAAGCAAGGGCCATCATGGCTGGACAAG AAGTGTTCAGATTTTGGACCACCAGTGTACCAAGCATCGGCTCATTCTGTCCGGATCCCAGTCT TTGAATTACTCCCTCAGGTTCAGCTGGAAGCTGTTCTTTGGGGCATTGGCACAGCGCTTGGGGA GCTCCCTCCTTATTTTATATCACGAGCTGGTAATATGGCATAACGCTTATTTCTTAAGTAAAGA AGCTTAGCTATATGCTTTACACTTTCTCACGTCTCAGTACTGGTGAACCTATGTAATTGTACAC ATGATTTACTCTGCTTTCTATTATTTTTTTTTATGAATTGACTTTCCTTGCACACTATATAACT GCATCTCATCAATTTTAGTACCACACAACTAAAATATATGGTCCACCATTACTGTATATAGTTC TTCAACTTCAATAATGCTCCCTCCATTTCTGTTTGTCATCTTTGACCACCTTTTGTGTTTGAGA ACAATTGTCACCACATTTTTAAAGTTCAGGTTGCCTACTTTGTCCTTTTGTGGGCTTAATAATG AATTTAACCATACAATTTTATTAACTTTGTATCTTGACATCTTATGAATCCCTTGATTTTGCTT GTTATTTTTTAGCCATAAATTAGGGCTGTGGTGGAAACTTCGGTTAGTGTTGTGATAAATTCTA GAAGATCGATTGTGTTGGCCCATGCATTAATTTCTGAATTTGGTTCCTGTCTCTTTTGTCATAT TCAACCACACCAAGTAAATGATGTGTCGTGTTGCAGCTCGTTTGTCAGGAAGTGAACCAGAAGC TGTGAAGGAGCTGGATGCTGCTGCTTCGGATGAACATGGTCCAATAGCATCCACTCTCAATCGA ACAAAACGCTGGCTCCTTTCCCACTCTCAGCATCTCAACTTCATTACTATCTTGATTCTTGCTT CGGTTAGTCTATGTCCTTTTCCCATCTTGTCATGCCAATTTATTTGTAGCAGTAAGGATTTTCT TGCAAAAACTACATATAAGGATTCTCTAGCAAACATGCAAGCTACTATTCATTTGGGCCTCTTT CTCGAGTCATGCCTACTGCTCTGAACATAGATAGCTCATGCATCTTTAAAAGAGGGAGCTGGAG TTGATGGTAGGTTCTACACCCATCCAACTCCGGATCTTCTGTAACTGCAAATATGTGTAGGCGT GTGTCATGTGTGTTTGCATCTTTGCTCATATAATTATGTATATTGTATACAAGTTTTAGAGAGG ATAATTATTTTTTATGCATTTTATATTTTTAGACTTATAGTATATTAGTTATGATCTGCTGCAA TGCATGCATGATGCTAATGGTGCTAAAAAAAGTTGAAGCGGACATTCTCCGTATCAATGCCATA GCTAACAGATGGTGGTGATATGGAGAATCTTGGTTCTTTTGTACTAACATCTGATGGATAAATA ATTTACCATACAATGAATTTTCTTTGTGCTTACTAGGTTCCAAACCCACTGTTTGACCTTGCTG GTATAATGTGTGGGCAATTTGGCATTCCCTTCTGGGAGTTCTTCTTTGCTACTTTGATTGGGAA GGCCATCATCAAGACCCATATTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225818557

Conservation Information
Conserved circRNAs	NA
PMCS	0.225818557

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32958881-32958838(+)
32958958-32961693(-)
32958861-32960897(-)
						
						Potential amino acid sequence
						
							MLAMLQYLKRLATYILSKGALFVVLIVLVLAPGILLAVTDGLHKKHVQEFLNYARFVLWWVSLG
VASSIGLGSGLHTFVLYLGPHIALFTIKAVQCGRIDLKTAPYDTIQLKQGPSWLDKKCSDFGPP
VYQASAHSVRIPVFELLPQVQLEAVLWGIGTALGELPPYFISRAARLSGSEPEAVKELDAAASD
EHGPIASTLNRTKRWLLSHSQHLNFITILILASVPNPLFDLAGIMCGQFGIPFWEFFFATLIGK
AIIKTHIQKSVRNTNWNWRI*(+)
MRTTNKAPLLRIYVANLFKYCNIANMKKRNVLNGCFVSVKFSSSNLCFSRISEYGS*(-)
MDALLVSNSPVPICVSHGFLNMGLDDGLPNQSSKEELPEGNAKLPTHYTSKVKQWVWNRSKNQD
SNEVEMLRVGKEPAFCSIESGCYWTMFIRSSSIQLLHSFWFTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32958881-32958838(+) 32958958-32961693(-) 32958861-32960897(-)
Potential amino acid sequence	MLAMLQYLKRLATYILSKGALFVVLIVLVLAPGILLAVTDGLHKKHVQEFLNYARFVLWWVSLG VASSIGLGSGLHTFVLYLGPHIALFTIKAVQCGRIDLKTAPYDTIQLKQGPSWLDKKCSDFGPP VYQASAHSVRIPVFELLPQVQLEAVLWGIGTALGELPPYFISRAARLSGSEPEAVKELDAAASD EHGPIASTLNRTKRWLLSHSQHLNFITILILASVPNPLFDLAGIMCGQFGIPFWEFFFATLIGK AIIKTHIQKSVRNTNWNWRI(+) MRTTNKAPLLRIYVANLFKYCNIANMKKRNVLNGCFVSVKFSSSNLCFSRISEYGS(-) MDALLVSNSPVPICVSHGFLNMGLDDGLPNQSSKEELPEGNAKLPTHYTSKVKQWVWNRSKNQD SNEVEMLRVGKEPAFCSIESGCYWTMFIRSSSIQLLHSFWFTS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0778700_circ_g.1

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