Plant Circular RNA Database

Detail information of Os01g0778700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0778700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_004183
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 32958803-32962489  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.1 Os01g0778700_circ_g.3 Os01g0778700_circ_g.4 Os01g0778700_circ_g.5 						
					
						Support reads
						2
					
						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
						Os01t0778700-01:6

General Information
CircRNA Name	Os01g0778700_circ_g.2
ID in PlantcircBase	osa_circ_004183
Alias	NA
Organism	Oryza sativa
Position	chr1: 32958803-32962489 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.1 Os01g0778700_circ_g.3 Os01g0778700_circ_g.4 Os01g0778700_circ_g.5
Support reads	2
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	Os01t0778700-01:6

			
						 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  
						
							GTTTTCTGCCTCCTTGCCATCTGTGATTGCAAAGCTCCACAGTGCGAAGGATAAGTATTTATCA
ACACCAACATCGGCCACATCATCCTCAAAAATGGAGaaatccgtgagaaacacaaattggaact
ggagaatttgacactaacaaagcatccattcaggacattacgttttttcatgttagctatgttg
caatactt

									
								

					

						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
						
							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
GGCCATCATCAAGACCCATATTCAGGTTTGCTGTCTGTCTAATCTTCTGTTAATGCTTATATTT
ATATGTTTCGTAACTTTGGGGCCCTTTTTTTTTCGCCGGGGGGTTGGGGGGGGGGGTGCGCTTT
TCATCAATGTGAATGATCTTAACAGGGCAAATCGTTCTTAGTTGCATTATGTGTCAGCATGTTT
TCCTGAGTCCTATTCAGTTGAAATCATAATTTCAAAACTATCTCAACCTTGCCCATTCAGAAAA
TAAACCAAAATTTTGCAAGCCCTCTCAAACAAAAGGCCAGACCATGCATTAGTCAAATTCTAGA
AATTCTGTTGTTTATCTGTTTCATAACTTCCTTTTTCTCCCTTAGCCGCATAAATAGTTCCTGC
TTCTAGTCAGGATATATAATTTTGCCATACAAAGTATGTTAAAAGCCAGTGCTATTTTTCTCGT
TGCACTCTTTTCATTCCTGCCGCCACAGTAAACTTTTGCAGGGAGTCTACAGTATTTGAACTTC
CAAGCCTGATTGAACTGAATTAATTACTACTGTATTCCACTTGAATTGTCTTGTCGATGATCCC
AAAAGTTGCTGCTGACACATGCATTTTGCCTTCTCTCTTTTGCAGACATTATTTATTATCTCCT
TGTGCAACAATCAACTCTTGTATCTTATGGAAAAGGAATTAATCTGGATATTTGGTCACATTCC
TGGGTTTTCTGCCTCCTTGCCATCTGTGATTGCAAAGCTCCACAGTGCGAAGGATAAGTATTTA
TCAACACCAACATCGGCCACATCATCCTCAAAAATGGAG
						
					

			
		

Sequences
Splice junction sequence	GTTTTCTGCCTCCTTGCCATCTGTGATTGCAAAGCTCCACAGTGCGAAGGATAAGTATTTATCA ACACCAACATCGGCCACATCATCCTCAAAAATGGAGaaatccgtgagaaacacaaattggaact ggagaatttgacactaacaaagcatccattcaggacattacgttttttcatgttagctatgttg caatactt
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	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 GGCCATCATCAAGACCCATATTCAGGTTTGCTGTCTGTCTAATCTTCTGTTAATGCTTATATTT ATATGTTTCGTAACTTTGGGGCCCTTTTTTTTTCGCCGGGGGGTTGGGGGGGGGGGTGCGCTTT TCATCAATGTGAATGATCTTAACAGGGCAAATCGTTCTTAGTTGCATTATGTGTCAGCATGTTT TCCTGAGTCCTATTCAGTTGAAATCATAATTTCAAAACTATCTCAACCTTGCCCATTCAGAAAA TAAACCAAAATTTTGCAAGCCCTCTCAAACAAAAGGCCAGACCATGCATTAGTCAAATTCTAGA AATTCTGTTGTTTATCTGTTTCATAACTTCCTTTTTCTCCCTTAGCCGCATAAATAGTTCCTGC TTCTAGTCAGGATATATAATTTTGCCATACAAAGTATGTTAAAAGCCAGTGCTATTTTTCTCGT TGCACTCTTTTCATTCCTGCCGCCACAGTAAACTTTTGCAGGGAGTCTACAGTATTTGAACTTC CAAGCCTGATTGAACTGAATTAATTACTACTGTATTCCACTTGAATTGTCTTGTCGATGATCCC AAAAGTTGCTGCTGACACATGCATTTTGCCTTCTCTCTTTTGCAGACATTATTTATTATCTCCT TGTGCAACAATCAACTCTTGTATCTTATGGAAAAGGAATTAATCTGGATATTTGGTCACATTCC TGGGTTTTCTGCCTCCTTGCCATCTGTGATTGCAAAGCTCCACAGTGCGAAGGATAAGTATTTA TCAACACCAACATCGGCCACATCATCCTCAAAAATGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.114546944

Conservation Information
Conserved circRNAs	NA
PMCS	0.114546944

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32958881-32958838(+)
32958958-32962349(-)
32958861-32962480(-)
						
						Potential amino acid sequence
						
							MLAMLQYLKRLATYILSKGALFVVLIVLVLAPGILLAVTDGLHKKHVQEFLNYARFVLWWVSLG
VASSIGLGSGLHTFVLYLGPHIALFTIKAVQCGRIDLKTAPYDTIQLKQGPSWLDKKCSDFGPP
VYQASAHSVRIPVFELLPQVQLEAVLWGIGTALGELPPYFISRAARLSGSEPEAVKELDAAASD
EHGPIASTLNRTKRWLLSHSQHLNFITILILASVPNPLFDLAGIMCGQFGIPFWEFFFATLIGK
AIIKTHIQTLFIISLCNNQLLYLMEKELIWIFGHIPGFSASLPSVIAKLHSAKDKYLSTPTSAT
SSSKMEKSVRNTNWNWRI*(+)
MRTTNKAPLLRIYVANLFKYCNIANMKKRNVLNGCFVSVKFSSSNLCFSRISPFLRMMWPMLVL
INTYPSHCGALQSQMARRQKTQECDQISRLIPFP*(-)
MDALLVSNSPVPICVSHGFLHF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32958881-32958838(+) 32958958-32962349(-) 32958861-32962480(-)
Potential amino acid sequence	MLAMLQYLKRLATYILSKGALFVVLIVLVLAPGILLAVTDGLHKKHVQEFLNYARFVLWWVSLG VASSIGLGSGLHTFVLYLGPHIALFTIKAVQCGRIDLKTAPYDTIQLKQGPSWLDKKCSDFGPP VYQASAHSVRIPVFELLPQVQLEAVLWGIGTALGELPPYFISRAARLSGSEPEAVKELDAAASD EHGPIASTLNRTKRWLLSHSQHLNFITILILASVPNPLFDLAGIMCGQFGIPFWEFFFATLIGK AIIKTHIQTLFIISLCNNQLLYLMEKELIWIFGHIPGFSASLPSVIAKLHSAKDKYLSTPTSAT SSSKMEKSVRNTNWNWRI(+) MRTTNKAPLLRIYVANLFKYCNIANMKKRNVLNGCFVSVKFSSSNLCFSRISPFLRMMWPMLVL INTYPSHCGALQSQMARRQKTQECDQISRLIPFP(-) MDALLVSNSPVPICVSHGFLHF*(-)
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.2

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