Plant Circular RNA Database

Detail information of Os02g0710900_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0710900_circ_g.4
					
						ID in PlantcircBase
						osa_circ_016223
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29454204-29455951  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0710900						
					
						Parent gene annotation
						
							Heat shock protein Hsp70 family protein. (Os02t0710900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0710900_circ_g.3 Os02g0710900_circ_g.5 Os02g0710900_circ_g.6 Os02g0710900_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os02t0710950-00:5
Os02t0710900-01:5
Os02t0710950-00:5

General Information
CircRNA Name	Os02g0710900_circ_g.4
ID in PlantcircBase	osa_circ_016223
Alias	NA
Organism	Oryza sativa
Position	chr2: 29454204-29455951 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0710900
Parent gene annotation	Heat shock protein Hsp70 family protein. (Os02t0710900-01)
Parent gene strand	+
Alternative splicing	Os02g0710900_circ_g.3 Os02g0710900_circ_g.5 Os02g0710900_circ_g.6 Os02g0710900_circ_g.7
Support reads	1
Tissues	shoot
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	Os02t0710950-00:5 Os02t0710900-01:5 Os02t0710950-00:5

			
						 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  
						
							AACTAGGTTAGAGGCGCTTGATAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAAT
AACCTGGAGTCTTACATATACTCTATGAAGGAGAAGgagtaccattacacgtgaaaaatttgaa
gaactttgtgaagaattatgggagcaggctctaactccagttaaagaagtgcttgcacattctg
gaatgaag

									
								

					

						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: 1039
Transcript exons: 29454204-29454363,29454656-29454901,29454999-29455135,29
455381-29455714,29455790-29455951
GAGTACCATTACACGTGAAAAATTTGAAGAACTTTGTGAAGAATTATGGGAGCAGGCTCTAACT
CCAGTTAAAGAAGTGCTTGCACATTCTGGAATGAAGATTGATGATATCTATGCTGTAGAATTAA
TAGGAGGAGCTACTCGAGTACCAAAATTGCAGGCTAAGCTGCAGGAATTCCTGGGAAGAAGTGA
CCTGGATAAGCATCTTGATGCAGATGAAGCAATTGTTCTGGGTGCCTCACTGCATGCAGCTAAC
TTAAGTGATGGAATTAAGTTGAACCGTAAGTTAGGGATGATTGATGGTTCTACTTATGGTTTTG
TGTTTGAAATAAATGGCCCAGATTATGTCAAAGATGAAAGCACTGATCAATTACTGGTGCCAAG
GATGAAAAAATTGGGAATTAAGATGTTCAGGTCCATTAGACATACTAAAGACTTCGATGTTTCT
ATCAGCTATGAAAAAGCTTCTGAACTGCCTCCAGGTGTTACATCACACAAATTTGTGGAGTATT
CTGTATCAGGCCTGACAGATGCAAGCGAAAAGTACAGTAGCCGCAATTTATCTGCACCCATCAA
GGCAAATCTACATTTTTCTTTGAGTAGGAGCGGAATTATTTCTCTTGATAGGGCAGAAGCAGTG
ATTGAGATAACTGAATGGGTTGAAGTTCCAAAGAAGAATTTAACTCTAGAGAGTAATTCCACCA
GTCAGACTTTGTCTTCGGAAGGAGGAGCAGCTAATGACACATCTGACAGTAAGGAGAATGTGAG
TTCTGATGGGGATGCAAATAAGTCCAGTGCTCCAATAGATGAGAGTAATGCACAAGATATTGTT
ACAGAGAAGGTGCTCAAGAAAAGAACATTCAGGGTCCCGTTAAAGGTTGTGGAAAAGATGGCTG
GTGCTGGATCAATTCTTTCGAAGGAGTTGTATTCTGAAGCAAAAACTAGGTTAGAGGCGCTTGA
TAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAATAACCTGGAGTCTTACATATAC
TCTATGAAGGAGAAG
						
					

						Genomic sequence
						
							GAGTACCATTACACGTGAAAAATTTGAAGAACTTTGTGAAGAATTATGGGAGCAGGCTCTAACT
CCAGTTAAAGAAGTGCTTGCACATTCTGGAATGAAGATTGATGATATCTATGCTGTAGAATTAA
TAGGAGGAGCTACTCGAGTACCAAAATTGCAGGTGATTAAACTGAACTCGTTTTTATGTTTGAC
CTTGTATTGTGGGGCTCTAATGGCATTCAGGCACATGACTGCCATGTTTTTATTTCTCTCTTGT
CACTTGATTCTCATCATAAGTTTAATACAATCCATTACTTTTAGTTAACATCTTAAAAATTTGC
TATCATATCTCAAAGGCATTTGTTAACCACGGTAACCTACTATGCAGATGACTTAACTGTACTT
CTGAAACAGTTGTGCTTCCATCATTCACCTTGTTATTTTTGTAATAAAATTCCATTCTCCTGGT
ACAGGCTAAGCTGCAGGAATTCCTGGGAAGAAGTGACCTGGATAAGCATCTTGATGCAGATGAA
GCAATTGTTCTGGGTGCCTCACTGCATGCAGCTAACTTAAGTGATGGAATTAAGTTGAACCGTA
AGTTAGGGATGATTGATGGTTCTACTTATGGTTTTGTGTTTGAAATAAATGGCCCAGATTATGT
CAAAGATGAAAGCACTGATCAATTACTGGTGCCAAGGATGAAAAAATTGGGAATTAAGGTTATA
ATGCACCTTTCTTGTTTCCTTTTGATTATATGCAAAAAAAAAAGTTTTTTTTAAAAAATAATCT
AGCTTGCAATTGTTTTGTTGTCTACAGATGTTCAGGTCCATTAGACATACTAAAGACTTCGATG
TTTCTATCAGCTATGAAAAAGCTTCTGAACTGCCTCCAGGTGTTACATCACACAAATTTGTGGA
GTATTCTGTATCAGGCCTGACAGATGCAAGCGAAAAGTAAGCATGCATAATGCATATCATCTTA
TGTACTTTTTTTGTGTCATGGTACTGCTTATAACAAGCTGAACATAGAGTACCTTTATTTCAAC
TGCTATTTTTTTGGGGGCGGAACATTCCATCTTCGAGGCTGCAGTACATATGTTTATTCTATTT
CTAAATAATATCTCAACACCATTGCCATTGGCAATTTGTATGTGTTTAATTTCACTGCATGAAT
TTAACCATGTGGTTATTTCAAACAGGTACAGTAGCCGCAATTTATCTGCACCCATCAAGGCAAA
TCTACATTTTTCTTTGAGTAGGAGCGGAATTATTTCTCTTGATAGGGCAGAAGCAGTGATTGAG
ATAACTGAATGGGTTGAAGTTCCAAAGAAGAATTTAACTCTAGAGAGTAATTCCACCAGTCAGA
CTTTGTCTTCGGAAGGAGGAGCAGCTAATGACACATCTGACAGTAAGGAGAATGTGAGTTCTGA
TGGGGATGCAAATAAGTCCAGTGCTCCAATAGATGAGAGTAATGCACAAGATATTGTTACAGAG
AAGGTGCTCAAGAAAAGAACATTCAGGGTCCCGTTAAAGGTAAAGATAGAAGGTCATAAATCTG
GTGTTAATATTGACAGAACATGACTTAATAAATATGTTGTCCAATGGCAGGTTGTGGAAAAGAT
GGCTGGTGCTGGATCAATTCTTTCGAAGGAGTTGTATTCTGAAGCAAAAACTAGGTTAGAGGCG
CTTGATAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAATAACCTGGAGTCTTACA
TATACTCTATGAAGGAGAAG
						
					

			
		

Sequences
Splice junction sequence	AACTAGGTTAGAGGCGCTTGATAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAAT AACCTGGAGTCTTACATATACTCTATGAAGGAGAAGgagtaccattacacgtgaaaaatttgaa gaactttgtgaagaattatgggagcaggctctaactccagttaaagaagtgcttgcacattctg gaatgaag
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: 1039 Transcript exons: 29454204-29454363,29454656-29454901,29454999-29455135,29 455381-29455714,29455790-29455951 GAGTACCATTACACGTGAAAAATTTGAAGAACTTTGTGAAGAATTATGGGAGCAGGCTCTAACT CCAGTTAAAGAAGTGCTTGCACATTCTGGAATGAAGATTGATGATATCTATGCTGTAGAATTAA TAGGAGGAGCTACTCGAGTACCAAAATTGCAGGCTAAGCTGCAGGAATTCCTGGGAAGAAGTGA CCTGGATAAGCATCTTGATGCAGATGAAGCAATTGTTCTGGGTGCCTCACTGCATGCAGCTAAC TTAAGTGATGGAATTAAGTTGAACCGTAAGTTAGGGATGATTGATGGTTCTACTTATGGTTTTG TGTTTGAAATAAATGGCCCAGATTATGTCAAAGATGAAAGCACTGATCAATTACTGGTGCCAAG GATGAAAAAATTGGGAATTAAGATGTTCAGGTCCATTAGACATACTAAAGACTTCGATGTTTCT ATCAGCTATGAAAAAGCTTCTGAACTGCCTCCAGGTGTTACATCACACAAATTTGTGGAGTATT CTGTATCAGGCCTGACAGATGCAAGCGAAAAGTACAGTAGCCGCAATTTATCTGCACCCATCAA GGCAAATCTACATTTTTCTTTGAGTAGGAGCGGAATTATTTCTCTTGATAGGGCAGAAGCAGTG ATTGAGATAACTGAATGGGTTGAAGTTCCAAAGAAGAATTTAACTCTAGAGAGTAATTCCACCA GTCAGACTTTGTCTTCGGAAGGAGGAGCAGCTAATGACACATCTGACAGTAAGGAGAATGTGAG TTCTGATGGGGATGCAAATAAGTCCAGTGCTCCAATAGATGAGAGTAATGCACAAGATATTGTT ACAGAGAAGGTGCTCAAGAAAAGAACATTCAGGGTCCCGTTAAAGGTTGTGGAAAAGATGGCTG GTGCTGGATCAATTCTTTCGAAGGAGTTGTATTCTGAAGCAAAAACTAGGTTAGAGGCGCTTGA TAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAATAACCTGGAGTCTTACATATAC TCTATGAAGGAGAAG
Genomic sequence	GAGTACCATTACACGTGAAAAATTTGAAGAACTTTGTGAAGAATTATGGGAGCAGGCTCTAACT CCAGTTAAAGAAGTGCTTGCACATTCTGGAATGAAGATTGATGATATCTATGCTGTAGAATTAA TAGGAGGAGCTACTCGAGTACCAAAATTGCAGGTGATTAAACTGAACTCGTTTTTATGTTTGAC CTTGTATTGTGGGGCTCTAATGGCATTCAGGCACATGACTGCCATGTTTTTATTTCTCTCTTGT CACTTGATTCTCATCATAAGTTTAATACAATCCATTACTTTTAGTTAACATCTTAAAAATTTGC TATCATATCTCAAAGGCATTTGTTAACCACGGTAACCTACTATGCAGATGACTTAACTGTACTT CTGAAACAGTTGTGCTTCCATCATTCACCTTGTTATTTTTGTAATAAAATTCCATTCTCCTGGT ACAGGCTAAGCTGCAGGAATTCCTGGGAAGAAGTGACCTGGATAAGCATCTTGATGCAGATGAA GCAATTGTTCTGGGTGCCTCACTGCATGCAGCTAACTTAAGTGATGGAATTAAGTTGAACCGTA AGTTAGGGATGATTGATGGTTCTACTTATGGTTTTGTGTTTGAAATAAATGGCCCAGATTATGT CAAAGATGAAAGCACTGATCAATTACTGGTGCCAAGGATGAAAAAATTGGGAATTAAGGTTATA ATGCACCTTTCTTGTTTCCTTTTGATTATATGCAAAAAAAAAAGTTTTTTTTAAAAAATAATCT AGCTTGCAATTGTTTTGTTGTCTACAGATGTTCAGGTCCATTAGACATACTAAAGACTTCGATG TTTCTATCAGCTATGAAAAAGCTTCTGAACTGCCTCCAGGTGTTACATCACACAAATTTGTGGA GTATTCTGTATCAGGCCTGACAGATGCAAGCGAAAAGTAAGCATGCATAATGCATATCATCTTA TGTACTTTTTTTGTGTCATGGTACTGCTTATAACAAGCTGAACATAGAGTACCTTTATTTCAAC TGCTATTTTTTTGGGGGCGGAACATTCCATCTTCGAGGCTGCAGTACATATGTTTATTCTATTT CTAAATAATATCTCAACACCATTGCCATTGGCAATTTGTATGTGTTTAATTTCACTGCATGAAT TTAACCATGTGGTTATTTCAAACAGGTACAGTAGCCGCAATTTATCTGCACCCATCAAGGCAAA TCTACATTTTTCTTTGAGTAGGAGCGGAATTATTTCTCTTGATAGGGCAGAAGCAGTGATTGAG ATAACTGAATGGGTTGAAGTTCCAAAGAAGAATTTAACTCTAGAGAGTAATTCCACCAGTCAGA CTTTGTCTTCGGAAGGAGGAGCAGCTAATGACACATCTGACAGTAAGGAGAATGTGAGTTCTGA TGGGGATGCAAATAAGTCCAGTGCTCCAATAGATGAGAGTAATGCACAAGATATTGTTACAGAG AAGGTGCTCAAGAAAAGAACATTCAGGGTCCCGTTAAAGGTAAAGATAGAAGGTCATAAATCTG GTGTTAATATTGACAGAACATGACTTAATAAATATGTTGTCCAATGGCAGGTTGTGGAAAAGAT GGCTGGTGCTGGATCAATTCTTTCGAAGGAGTTGTATTCTGAAGCAAAAACTAGGTTAGAGGCG CTTGATAAGAAGGATGCTGAAAGGAGGAGAACTGCTGAACTGAAAAATAACCTGGAGTCTTACA TATACTCTATGAAGGAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.266839307

Conservation Information
Conserved circRNAs	NA
PMCS	0.266839307

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29454299-29454218(+)
29454214-29455861(-)
						
						Potential amino acid sequence
						
							MKIDDIYAVELIGGATRVPKLQAKLQEFLGRSDLDKHLDADEAIVLGASLHAANLSDGIKLNRK
LGMIDGSTYGFVFEINGPDYVKDESTDQLLVPRMKKLGIKMFRSIRHTKDFDVSISYEKASELP
PGVTSHKFVEYSVSGLTDASEKYSSRNLSAPIKANLHFSLSRSGIISLDRAEAVIEITEWVEVP
KKNLTLESNSTSQTLSSEGGAANDTSDSKENVSSDGDANKSSAPIDESNAQDIVTEKVLKKRTF
RVPLKVVEKMAGAGSILSKELYSEAKTRLEALDKKDAERRRTAELKNNLESYIYSMKEKEYHYT
*(+)
MVLLLLHRVYVRLQVIFQFSSSPPFSILLIKRL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29454299-29454218(+) 29454214-29455861(-)
Potential amino acid sequence	MKIDDIYAVELIGGATRVPKLQAKLQEFLGRSDLDKHLDADEAIVLGASLHAANLSDGIKLNRK LGMIDGSTYGFVFEINGPDYVKDESTDQLLVPRMKKLGIKMFRSIRHTKDFDVSISYEKASELP PGVTSHKFVEYSVSGLTDASEKYSSRNLSAPIKANLHFSLSRSGIISLDRAEAVIEITEWVEVP KKNLTLESNSTSQTLSSEGGAANDTSDSKENVSSDGDANKSSAPIDESNAQDIVTEKVLKKRTF RVPLKVVEKMAGAGSILSKELYSEAKTRLEALDKKDAERRRTAELKNNLESYIYSMKEKEYHYT (+) MVLLLLHRVYVRLQVIFQFSSSPPFSILLIKRL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0710900_circ_g.4

Address

Any questions?

Supported by