Plant Circular RNA Database

Detail information of Os01g0531500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0531500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_001997
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 19137373-19139204  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0531500						
					
						Parent gene annotation
						
							Dienelactone hydrolase domain containing protein. (Os01t0531500-
01);Similar to protein usf. (Os01t0531500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0531500_circ_g.1 Os01g0531500_circ_g.3 						
					
						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
						Os01t0531500-02:3
Os01t0531500-01:3

General Information
CircRNA Name	Os01g0531500_circ_g.2
ID in PlantcircBase	osa_circ_001997
Alias	NA
Organism	Oryza sativa
Position	chr1: 19137373-19139204 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0531500
Parent gene annotation	Dienelactone hydrolase domain containing protein. (Os01t0531500- 01);Similar to protein usf. (Os01t0531500-02)
Parent gene strand	+
Alternative splicing	Os01g0531500_circ_g.1 Os01g0531500_circ_g.3
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	Os01t0531500-02:3 Os01t0531500-01:3

			
						 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  
						
							GACACCACCTTCTGAGCTTGCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTTTGGG
GAGCTTGACAGTTTTGTTGGATTTGCAGATGTCACGacttttgatgcctatgttgttggaaaag
agaatgctcctggaattgttgttttgcaagagtggtggggggttgactatgagatcaagaatca
tgctgtcc

									
								

					

						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: 465
Transcript exons: 19137373-19137515,19138146-19138275,19139013-19139204
ACTTTTGATGCCTATGTTGTTGGAAAAGAGAATGCTCCTGGAATTGTTGTTTTGCAAGAGTGGT
GGGGGGTTGACTATGAGATCAAGAATCATGCTGTCCACATTTCCCAAATTGGTGAAGGATACAG
AGCTCTCATTCCAGATTTGTATCGTGGTAAGGTTGCTCTTGATGTAGCGGAAGCTCAGCATCTG
ATGGAAGGTCTAGACTGGCCGGGTGCGGTCAAGGATATTCAGGCTTCAGTTAAATGGCTCAAGG
CAAATGGATCACCCAAGGTTGGTGTTACTGGATATTGCATGGGAGGCGCTTTGTCAATTGCAAG
TGGAGTTTCAGTCCCAGAGGTTGATGCTGTTGTGGCTTTCTATGGGACACCACCTTCTGAGCTT
GCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTTTGGGGAGCTTGACAGTTTTGTTG
GATTTGCAGATGTCACG
						
					

						Genomic sequence
						
							ACTTTTGATGCCTATGTTGTTGGAAAAGAGAATGCTCCTGGAATTGTTGTTTTGCAAGAGTGGT
GGGGGGTTGACTATGAGATCAAGAATCATGCTGTCCACATTTCCCAAATTGGTGAAGGATACAG
AGCTCTCATTCCAGAGTAAGATCATATCTTGTGGTTCTTTATTTTGCAAGAATTTCCTCATTTG
TCACAAAGTTAAAATGGCATAATCACATTTTCCAGAGAGTTTGTGTGCTCTTTTTCTGTTGAGT
TTGATGCAAATCAGTTCATTTGCCACAATAGAGCCACCTCTCCTGCTTCTCCCGAGAATGACCA
TTGTGGGTGACACTTCATCGTCTTCAACGCATGCGCTGACTCCAGCCATCATCACGCCATGCCA
GCTACTGTTGCATCCCCCCATGCTGGCTCCAATGTCGCCTTTGGTTAGGAGCTAGGAGAGAGGG
AAGGAAGGTGGAGGAACAATATGGGAAAGGAGGCAGATGGCTGGGCATGGGAGCTCATTCTCGG
GAGAAGCAAGAGAGGTGGCTGGAGCTTACACATAATTGTTGTGCATGTCATTGTGGCACATGAG
AAAATTCCCATTCAACTCTTGTAAATTTGAGCATGCCACTCAACTTCTTTGCACACAGCAAATT
TTCATTCTTCAGCAATAATTAGCATCACGTATTCAAAAACAAAGTTCTAGGAATGGATGCTTCA
TAAATCTTAATACTTAGCATTTCGTTTCTCAGCCAAGAAACTTGTTTACCAACGTGCCTTTTTC
TTCAGTTTGTATCGTGGTAAGGTTGCTCTTGATGTAGCGGAAGCTCAGCATCTGATGGAAGGTC
TAGACTGGCCGGGTGCGGTCAAGGATATTCAGGCTTCAGTTAAATGGCTCAAGGCAAATGGATC
ACCCAAGGTAGGGCTCGTATTTGTTCTTGTTTCATTGTTTTCTCATGTTTTCTGTACTACTGAA
ATTATATCTCCGTCCACCATCCAAATATTTTCAGATGCCATGACATATTTACCCAACTAACTCG
TAACTAATTATTTCTGTTTGCTGACTGAACTTCACTGGTAGATTAAAAAGAACTAGAGAGTTAA
AAATGCAGCATTTGTATCTTGTTACGTGCTTACTTTAGATAGAGGTACCTCGGGCAGAAATTTC
AGCAATAGCAATTGATTGGTTTGAGTAACAGGGAGACAGAAGAAGTAAGAGCATTGTTGCAGTG
ATAAGTTGTGCTGATGGAGAGGGAAGGAGATTTCTTAACTCTTACTTTCCATAATGGCAGGTGT
ATAGTCTTTAAAGGAACTGGCCCTAACAAATGTTATTTAGAGATGACTTAGTAACCAGAAGATA
AACATCGTAACTGTCAGATTCTTGGTTACAGAAAATAAACCTAGGTATATTCCTTGATTTCCTA
CATATGCCTTTTCATGGGAAGTAACTAATCATGGGGATAGATTACTCAGCTGAGTTGGTTGCTT
GCCATGTGCCTAACTTGCTGCACCTTTTAGGGGTGTACACATGATGTATTGACATATTATCCTA
ATTGATGGATGAAACCTAGCAAAAAAAAAAAATTGTCTACATTCTGATGAAACCATGCAGAATG
TAATGAATTGCATTATGATAACTTATATTCCTCCATGTAGGTTGGTGTTACTGGATATTGCATG
GGAGGCGCTTTGTCAATTGCAAGTGGAGTTTCAGTCCCAGAGGTTGATGCTGTTGTGGCTTTCT
ATGGGACACCACCTTCTGAGCTTGCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTT
TGGGGAGCTTGACAGTTTTGTTGGATTTGCAGATGTCACG
						
					

			
		

Sequences
Splice junction sequence	GACACCACCTTCTGAGCTTGCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTTTGGG GAGCTTGACAGTTTTGTTGGATTTGCAGATGTCACGacttttgatgcctatgttgttggaaaag agaatgctcctggaattgttgttttgcaagagtggtggggggttgactatgagatcaagaatca tgctgtcc
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: 465 Transcript exons: 19137373-19137515,19138146-19138275,19139013-19139204 ACTTTTGATGCCTATGTTGTTGGAAAAGAGAATGCTCCTGGAATTGTTGTTTTGCAAGAGTGGT GGGGGGTTGACTATGAGATCAAGAATCATGCTGTCCACATTTCCCAAATTGGTGAAGGATACAG AGCTCTCATTCCAGATTTGTATCGTGGTAAGGTTGCTCTTGATGTAGCGGAAGCTCAGCATCTG ATGGAAGGTCTAGACTGGCCGGGTGCGGTCAAGGATATTCAGGCTTCAGTTAAATGGCTCAAGG CAAATGGATCACCCAAGGTTGGTGTTACTGGATATTGCATGGGAGGCGCTTTGTCAATTGCAAG TGGAGTTTCAGTCCCAGAGGTTGATGCTGTTGTGGCTTTCTATGGGACACCACCTTCTGAGCTT GCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTTTGGGGAGCTTGACAGTTTTGTTG GATTTGCAGATGTCACG
Genomic sequence	ACTTTTGATGCCTATGTTGTTGGAAAAGAGAATGCTCCTGGAATTGTTGTTTTGCAAGAGTGGT GGGGGGTTGACTATGAGATCAAGAATCATGCTGTCCACATTTCCCAAATTGGTGAAGGATACAG AGCTCTCATTCCAGAGTAAGATCATATCTTGTGGTTCTTTATTTTGCAAGAATTTCCTCATTTG TCACAAAGTTAAAATGGCATAATCACATTTTCCAGAGAGTTTGTGTGCTCTTTTTCTGTTGAGT TTGATGCAAATCAGTTCATTTGCCACAATAGAGCCACCTCTCCTGCTTCTCCCGAGAATGACCA TTGTGGGTGACACTTCATCGTCTTCAACGCATGCGCTGACTCCAGCCATCATCACGCCATGCCA GCTACTGTTGCATCCCCCCATGCTGGCTCCAATGTCGCCTTTGGTTAGGAGCTAGGAGAGAGGG AAGGAAGGTGGAGGAACAATATGGGAAAGGAGGCAGATGGCTGGGCATGGGAGCTCATTCTCGG GAGAAGCAAGAGAGGTGGCTGGAGCTTACACATAATTGTTGTGCATGTCATTGTGGCACATGAG AAAATTCCCATTCAACTCTTGTAAATTTGAGCATGCCACTCAACTTCTTTGCACACAGCAAATT TTCATTCTTCAGCAATAATTAGCATCACGTATTCAAAAACAAAGTTCTAGGAATGGATGCTTCA TAAATCTTAATACTTAGCATTTCGTTTCTCAGCCAAGAAACTTGTTTACCAACGTGCCTTTTTC TTCAGTTTGTATCGTGGTAAGGTTGCTCTTGATGTAGCGGAAGCTCAGCATCTGATGGAAGGTC TAGACTGGCCGGGTGCGGTCAAGGATATTCAGGCTTCAGTTAAATGGCTCAAGGCAAATGGATC ACCCAAGGTAGGGCTCGTATTTGTTCTTGTTTCATTGTTTTCTCATGTTTTCTGTACTACTGAA ATTATATCTCCGTCCACCATCCAAATATTTTCAGATGCCATGACATATTTACCCAACTAACTCG TAACTAATTATTTCTGTTTGCTGACTGAACTTCACTGGTAGATTAAAAAGAACTAGAGAGTTAA AAATGCAGCATTTGTATCTTGTTACGTGCTTACTTTAGATAGAGGTACCTCGGGCAGAAATTTC AGCAATAGCAATTGATTGGTTTGAGTAACAGGGAGACAGAAGAAGTAAGAGCATTGTTGCAGTG ATAAGTTGTGCTGATGGAGAGGGAAGGAGATTTCTTAACTCTTACTTTCCATAATGGCAGGTGT ATAGTCTTTAAAGGAACTGGCCCTAACAAATGTTATTTAGAGATGACTTAGTAACCAGAAGATA AACATCGTAACTGTCAGATTCTTGGTTACAGAAAATAAACCTAGGTATATTCCTTGATTTCCTA CATATGCCTTTTCATGGGAAGTAACTAATCATGGGGATAGATTACTCAGCTGAGTTGGTTGCTT GCCATGTGCCTAACTTGCTGCACCTTTTAGGGGTGTACACATGATGTATTGACATATTATCCTA ATTGATGGATGAAACCTAGCAAAAAAAAAAAATTGTCTACATTCTGATGAAACCATGCAGAATG TAATGAATTGCATTATGATAACTTATATTCCTCCATGTAGGTTGGTGTTACTGGATATTGCATG GGAGGCGCTTTGTCAATTGCAAGTGGAGTTTCAGTCCCAGAGGTTGATGCTGTTGTGGCTTTCT ATGGGACACCACCTTCTGAGCTTGCCGATGCTTCCAAGGCCCAGGCTCCCATCCAGGCTCATTT TGGGGAGCTTGACAGTTTTGTTGGATTTGCAGATGTCACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.230315743

Conservation Information
Conserved circRNAs	NA
PMCS	0.230315743

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19138196-19139201(+)
19138263-19138174(+)
19138193-19139069(-)
						
						Potential amino acid sequence
						
							MEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSVPEVDAVVAFYGTPPSEL
ADASKAQAPIQAHFGELDSFVGFADVTTFDAYVVGKENAPGIVVLQEWWGVDYEIKNHAVHISQ
IGEGYRALIPDLYRGKVALDVAEAQHLMEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGG
ALSIASGVSVPEVDAVVAFYGTPPSELADASKAQAPIQAHFGELDSFVGFADVTTFDAYVVGKE
NAPGIVVLQEWWGVDYEIKNHAVHISQIGEGYRALIPDLYRGKVALDVAEAQHLMEGLDWPGAV
KDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSVPEVDAVVAFYGTPPSELADASKAQAPI
QAHFGELDSFVGFADVTTFDAYVVGKENAPGIVVLQEWWGVDYEIKNHAVHISQIGEGYRALIP
DLYRGKVALDVAEAQHLMEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSV
PEVDAVVAFYGTPPSELADASKAQAPIQAHFGELDSFVGFADVT(+)
MDHPRLVLLDIAWEALCQLQVEFQSQRLMLLWLSMGHHLLSLPMLPRPRLPSRLILGSLTVLLD
LQMSRLLMPMLLEKRMLLELLFCKSGGGLTMRSRIMLSTFPKLVKDTELSFQICIVVRLLLM*(
+)
MLSFRYIKSNLTTIQIWNESSVSFTNLGNVDSMILDLIVNPPPLLQNNNSRSILFSNNIGIKSR
DICKSNKTVKLPKMSLDGSLGLGSIGKLRRWCPIESHNSINLWD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19138196-19139201(+) 19138263-19138174(+) 19138193-19139069(-)
Potential amino acid sequence	MEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSVPEVDAVVAFYGTPPSEL ADASKAQAPIQAHFGELDSFVGFADVTTFDAYVVGKENAPGIVVLQEWWGVDYEIKNHAVHISQ IGEGYRALIPDLYRGKVALDVAEAQHLMEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGG ALSIASGVSVPEVDAVVAFYGTPPSELADASKAQAPIQAHFGELDSFVGFADVTTFDAYVVGKE NAPGIVVLQEWWGVDYEIKNHAVHISQIGEGYRALIPDLYRGKVALDVAEAQHLMEGLDWPGAV KDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSVPEVDAVVAFYGTPPSELADASKAQAPI QAHFGELDSFVGFADVTTFDAYVVGKENAPGIVVLQEWWGVDYEIKNHAVHISQIGEGYRALIP DLYRGKVALDVAEAQHLMEGLDWPGAVKDIQASVKWLKANGSPKVGVTGYCMGGALSIASGVSV PEVDAVVAFYGTPPSELADASKAQAPIQAHFGELDSFVGFADVT(+) MDHPRLVLLDIAWEALCQLQVEFQSQRLMLLWLSMGHHLLSLPMLPRPRLPSRLILGSLTVLLD LQMSRLLMPMLLEKRMLLELLFCKSGGGLTMRSRIMLSTFPKLVKDTELSFQICIVVRLLLM( +) MLSFRYIKSNLTTIQIWNESSVSFTNLGNVDSMILDLIVNPPPLLQNNNSRSILFSNNIGIKSR DICKSNKTVKLPKMSLDGSLGLGSIGKLRRWCPIESHNSINLWD(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0531500_circ_g.2

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