Plant Circular RNA Database

Detail information of Os08g0384100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0384100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_036924
					
						Alias
						Os_ciR11410
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 18104727-18106660  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0384100						
					
						Parent gene annotation
						
							Double-stranded RNA-binding-like domain containing protein. (Os0
8t0384100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0384100_circ_g.2 						
					
						Support reads
						2/1
					
						Tissues
						root/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  
						
							CT-AC							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
						Os08t0384100-01:4

General Information
CircRNA Name	Os08g0384100_circ_g.3
ID in PlantcircBase	osa_circ_036924
Alias	Os_ciR11410
Organism	Oryza sativa
Position	chr8: 18104727-18106660 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0384100
Parent gene annotation	Double-stranded RNA-binding-like domain containing protein. (Os0 8t0384100-01)
Parent gene strand	-
Alternative splicing	Os08g0384100_circ_g.2
Support reads	2/1
Tissues	root/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	CT-AC 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	Os08t0384100-01:4

			
						 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  
						
							AGCTGATGGTGTTCACCCTTGCACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAA
GATACTCTTGCAATTTGCTTTTGTAATTGCAGTGCGctcaggctgtgaagggcaagatgctact
gtgcaactctttcttccttgacctctggtcctctgactttgttatccttgtgcttctttgatac
atggacag

									
								

					

						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: 859
Transcript exons: 18104727-18104940,18105044-18105208,18105336-18105546,18
106392-18106660
CTCAGGCTGTGAAGGGCAAGATGCTACTGTGCAACTCTTTCTTCCTTGACCTCTGGTCCTCTGA
CTTTGTTATCCTTGTGCTTCTTTGATACATGGACAGCTTGCTCAGATGGGTTGGAAGCTGGCTC
AGCTGCTGGTCTGACTTTGGGTTCCTCAGCAGCGACTAGAGGGGCAAATAGAGCTTGTGGCACA
GAAAGCATGTCGATTTCTCCATCATATAGTTTGAATATGGAAGGGGGTGTGAATTTTATAGGAG
CAAAAGGAAGTTTCTTGTTTGTTGGATTACTGTCGATTCCTTTGTTGTACCCAGAAGGTGAGAT
TGCCCTGATGAGCTTTTCCTTCGATCTAACAATTTTCGCCATGGAAGTGTAATTTGTAGCTAAA
AGTGACTTGACCGCAGCACGAGCTGCCTTCTGCTCTGCGTCCTTCTTGTTTCTTGCAGCTCCAC
CAGTATAAGTATGCCCAGCAAATGACACAGATGAAACATATGGAGTCACGGACCCTTCTGTCTT
GGTTACAGAGTATTCTGGTTGATCAGTTTTTGTCTTAGTAGTATATTCATGAAGAATTGATTTG
CTGAACACAACATCCTGATCAATGAGCTCAAACACATCTGTATCATCAGTCTCAGTCTCTTTCC
TTTCAAGCAAGGTATCATAGGCTACTTTAGCAGCATCCTGCTCAGCGTCCTTCACACGTCTATG
ACAAAAAGTGGATGAAAACTCCTCACCATCCACCATGACAGTGGATTTGAACTTAAGCTGATGG
TGTTCACCCTTGCACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAAGATACTCTT
GCAATTTGCTTTTGTAATTGCAGTGCG
						
					

						Genomic sequence
						
							CTCAGGCTGTGAAGGGCAAGATGCTACTGTGCAACTCTTTCTTCCTTGACCTCTGGTCCTCTGA
CTTTGTTATCCTTGTGCTTCTTTGATACATGGACAGCTTGCTCAGATGGGTTGGAAGCTGGCTC
AGCTGCTGGTCTGACTTTGGGTTCCTCAGCAGCGACTAGAGGGGCAAATAGAGCTTGTGGCACA
GAAAGCATGTCGATTTCTCCATCTAGCAGCGGTTTAACAACAGTTAGCACTTGAAATATAAAAA
AATGTTGGTGCATTGATTTACTGGAAAAAACAGCATGCTGGTTACACCAAATTAAACATACCAT
ATAGTTTGAATATGGAAGGGGGTGTGAATTTTATAGGAGCAAAAGGAAGTTTCTTGTTTGTTGG
ATTACTGTCGATTCCTTTGTTGTACCCAGAAGGTGAGATTGCCCTGATGAGCTTTTCCTTCGAT
CTAACAATTTTCGCCATGGAAGTGTAATTTGTAGCTGGAAGACCAACCGAACTATTAGTTGTTA
ACTTATACTCTTGCAAGTTTGGTCACACAATAAAAGCAGTTCAAGAAAGATGGTGGTGATCCTT
TTTTTCAGTCATGAAGAATGGAACTCATGTTACCTAAAAGTGACTTGACCGCAGCACGAGCTGC
CTTCTGCTCTGCGTCCTTCTTGTTTCTTGCAGCTCCACCAGTATAAGTATGCCCAGCAAATGAC
ACAGATGAAACATATGGAGTCACGGACCCTTCTGTCTTGGTTACAGAGTATTCTGGTTGATCAG
TTTTTGTCTTAGTAGTATATTCATGAAGAATTGATTTGCTGAACACAACATCCTGAATGGAAGA
AAAAGGAATGTGTGTTAGATAGAGGTCTTCATACTTATGAATGTTGAACGTAAATTTCAAAAGG
TGAGAGAACAAGACCAAAATGTTAGATTGTACTAATAAGGTACATAGTTAGTCTCTGATTCACT
GGCTTCTAAAATGTAAATAGTACAAAAAAAGGAGTTGCCAGAGGTATGCAGCCAGGGTCCTTGA
ATTTAAAAGGTGAACATTAGGTTCCCTCTACATGTGAGTCAAGTCAAAACAAGATCTAAAAATC
TATTTTATCGGCAATTAGAGATGGCATAATACTGTCTCAATCTAAATAACAATTAGCCACGTGA
TTGTCATTATAAACCACAGGACAATGGATAATTGTGGAATTTAAGAAAATTCACATATTATTGA
ACAGATTTTGTAGGCCTTTATTGATCATTTAGGAACTTCATGTCCAACGTTTAGCTTAAAAAGG
ATCAAAGTGTCACATAATCATTAACCAATAACTAAGCATGCATGCCTTTGACCTCTATTGATAA
ATGTATACACACGTAAATGTTCAGTTCTGAAGTTCAGAGAGCACAGTACATACAAGACAGTTTA
CTTCAAAATAAATTATGATTTCGTTAACAACATAAAATGCAATGTAACCAGACTTCAAGAAAAG
AAGCAGTAATGCTGAATCACATATAAGCATAGCCAAATCGTGCTTGTATTTTTTACTAACACAA
TGAAGACCAAAAAAAAAGCGAGATATGTTAACATGATGTTGCATAATTCAGAGCAAATATATAA
ACATTACTGCTGATTATGTGAAAGATGGTAAAGAACCAAGACAATGAATAGTTCAAATAAGGTA
CCTGATCAATGAGCTCAAACACATCTGTATCATCAGTCTCAGTCTCTTTCCTTTCAAGCAAGGT
ATCATAGGCTACTTTAGCAGCATCCTGCTCAGCGTCCTTCACACGTCTATGACAAAAAGTGGAT
GAAAACTCCTCACCATCCACCATGACAGTGGATTTGAACTTAAGCTGATGGTGTTCACCCTTGC
ACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAAGATACTCTTGCAATTTGCTTTT
GTAATTGCAGTGCG
						
					

			
		

Sequences
Splice junction sequence	AGCTGATGGTGTTCACCCTTGCACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAA GATACTCTTGCAATTTGCTTTTGTAATTGCAGTGCGctcaggctgtgaagggcaagatgctact gtgcaactctttcttccttgacctctggtcctctgactttgttatccttgtgcttctttgatac atggacag
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: 859 Transcript exons: 18104727-18104940,18105044-18105208,18105336-18105546,18 106392-18106660 CTCAGGCTGTGAAGGGCAAGATGCTACTGTGCAACTCTTTCTTCCTTGACCTCTGGTCCTCTGA CTTTGTTATCCTTGTGCTTCTTTGATACATGGACAGCTTGCTCAGATGGGTTGGAAGCTGGCTC AGCTGCTGGTCTGACTTTGGGTTCCTCAGCAGCGACTAGAGGGGCAAATAGAGCTTGTGGCACA GAAAGCATGTCGATTTCTCCATCATATAGTTTGAATATGGAAGGGGGTGTGAATTTTATAGGAG CAAAAGGAAGTTTCTTGTTTGTTGGATTACTGTCGATTCCTTTGTTGTACCCAGAAGGTGAGAT TGCCCTGATGAGCTTTTCCTTCGATCTAACAATTTTCGCCATGGAAGTGTAATTTGTAGCTAAA AGTGACTTGACCGCAGCACGAGCTGCCTTCTGCTCTGCGTCCTTCTTGTTTCTTGCAGCTCCAC CAGTATAAGTATGCCCAGCAAATGACACAGATGAAACATATGGAGTCACGGACCCTTCTGTCTT GGTTACAGAGTATTCTGGTTGATCAGTTTTTGTCTTAGTAGTATATTCATGAAGAATTGATTTG CTGAACACAACATCCTGATCAATGAGCTCAAACACATCTGTATCATCAGTCTCAGTCTCTTTCC TTTCAAGCAAGGTATCATAGGCTACTTTAGCAGCATCCTGCTCAGCGTCCTTCACACGTCTATG ACAAAAAGTGGATGAAAACTCCTCACCATCCACCATGACAGTGGATTTGAACTTAAGCTGATGG TGTTCACCCTTGCACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAAGATACTCTT GCAATTTGCTTTTGTAATTGCAGTGCG
Genomic sequence	CTCAGGCTGTGAAGGGCAAGATGCTACTGTGCAACTCTTTCTTCCTTGACCTCTGGTCCTCTGA CTTTGTTATCCTTGTGCTTCTTTGATACATGGACAGCTTGCTCAGATGGGTTGGAAGCTGGCTC AGCTGCTGGTCTGACTTTGGGTTCCTCAGCAGCGACTAGAGGGGCAAATAGAGCTTGTGGCACA GAAAGCATGTCGATTTCTCCATCTAGCAGCGGTTTAACAACAGTTAGCACTTGAAATATAAAAA AATGTTGGTGCATTGATTTACTGGAAAAAACAGCATGCTGGTTACACCAAATTAAACATACCAT ATAGTTTGAATATGGAAGGGGGTGTGAATTTTATAGGAGCAAAAGGAAGTTTCTTGTTTGTTGG ATTACTGTCGATTCCTTTGTTGTACCCAGAAGGTGAGATTGCCCTGATGAGCTTTTCCTTCGAT CTAACAATTTTCGCCATGGAAGTGTAATTTGTAGCTGGAAGACCAACCGAACTATTAGTTGTTA ACTTATACTCTTGCAAGTTTGGTCACACAATAAAAGCAGTTCAAGAAAGATGGTGGTGATCCTT TTTTTCAGTCATGAAGAATGGAACTCATGTTACCTAAAAGTGACTTGACCGCAGCACGAGCTGC CTTCTGCTCTGCGTCCTTCTTGTTTCTTGCAGCTCCACCAGTATAAGTATGCCCAGCAAATGAC ACAGATGAAACATATGGAGTCACGGACCCTTCTGTCTTGGTTACAGAGTATTCTGGTTGATCAG TTTTTGTCTTAGTAGTATATTCATGAAGAATTGATTTGCTGAACACAACATCCTGAATGGAAGA AAAAGGAATGTGTGTTAGATAGAGGTCTTCATACTTATGAATGTTGAACGTAAATTTCAAAAGG TGAGAGAACAAGACCAAAATGTTAGATTGTACTAATAAGGTACATAGTTAGTCTCTGATTCACT GGCTTCTAAAATGTAAATAGTACAAAAAAAGGAGTTGCCAGAGGTATGCAGCCAGGGTCCTTGA ATTTAAAAGGTGAACATTAGGTTCCCTCTACATGTGAGTCAAGTCAAAACAAGATCTAAAAATC TATTTTATCGGCAATTAGAGATGGCATAATACTGTCTCAATCTAAATAACAATTAGCCACGTGA TTGTCATTATAAACCACAGGACAATGGATAATTGTGGAATTTAAGAAAATTCACATATTATTGA ACAGATTTTGTAGGCCTTTATTGATCATTTAGGAACTTCATGTCCAACGTTTAGCTTAAAAAGG ATCAAAGTGTCACATAATCATTAACCAATAACTAAGCATGCATGCCTTTGACCTCTATTGATAA ATGTATACACACGTAAATGTTCAGTTCTGAAGTTCAGAGAGCACAGTACATACAAGACAGTTTA CTTCAAAATAAATTATGATTTCGTTAACAACATAAAATGCAATGTAACCAGACTTCAAGAAAAG AAGCAGTAATGCTGAATCACATATAAGCATAGCCAAATCGTGCTTGTATTTTTTACTAACACAA TGAAGACCAAAAAAAAAGCGAGATATGTTAACATGATGTTGCATAATTCAGAGCAAATATATAA ACATTACTGCTGATTATGTGAAAGATGGTAAAGAACCAAGACAATGAATAGTTCAAATAAGGTA CCTGATCAATGAGCTCAAACACATCTGTATCATCAGTCTCAGTCTCTTTCCTTTCAAGCAAGGT ATCATAGGCTACTTTAGCAGCATCCTGCTCAGCGTCCTTCACACGTCTATGACAAAAAGTGGAT GAAAACTCCTCACCATCCACCATGACAGTGGATTTGAACTTAAGCTGATGGTGTTCACCCTTGC ACTTGGTACAGTAGATTGGCAACTGCTTATTTGCCTGCTGAAGATACTCTTGCAATTTGCTTTT GTAATTGCAGTGCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007719* osi_circ_017869 						
					
						PMCS
						0.207720764

Conservation Information
Conserved circRNAs	osi_circ_007719* osi_circ_017869
PMCS	0.207720764

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18106567-18104772(+)
						
						Potential amino acid sequence
						
							MVFTLALGTVDWQLLICLLKILLQFAFVIAVRSGCEGQDATVQLFLP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18106567-18104772(+)
Potential amino acid sequence	MVFTLALGTVDWQLLICLLKILLQFAFVIAVRSGCEGQDATVQLFLP*(+)
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 Os08g0384100_circ_g.3

Address

Any questions?

Supported by