Plant Circular RNA Database

Detail information of Os06g0281400_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os06g0281400_circ_g.4
					
						ID in PlantcircBase
						osa_circ_030549
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 9846991-9850447  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0281400						
					
						Parent gene annotation
						
							Similar to DNA topoisomerase. (Os06t0281400-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0281400_circ_g.1 Os06g0281400_circ_g.2 Os06g0281400_circ_g.3 						
					
						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  
						
							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
						Os06t0281400-01:6

General Information
CircRNA Name	Os06g0281400_circ_g.4
ID in PlantcircBase	osa_circ_030549
Alias	NA
Organism	Oryza sativa
Position	chr6: 9846991-9850447 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0281400
Parent gene annotation	Similar to DNA topoisomerase. (Os06t0281400-01)
Parent gene strand	-
Alternative splicing	Os06g0281400_circ_g.1 Os06g0281400_circ_g.2 Os06g0281400_circ_g.3
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	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	Os06t0281400-01:6

			
						 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  
						
							CCTTATGCTGGTCGGCCTTATGGCTTCATGCGCTTCTTGAGCATTTTTCACCTTCTTGAAGTAT
TTTCTAATGCCCTCTGAAGCATATTCCTCACCATACctgcaatactttcattatagatgcatat
gtggatggccttccaattccaagttcttctagctttttaatctgcaaataccaaggaaaaaatg
atacattc

									
								

					

						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: 541
Transcript exons: 9846991-9847059,9847188-9847271,9847395-9847478,9848289-
9848381,9849113-9849213,9850338-9850447
CTGCAATACTTTCATTATAGATGCATATGTGGATGGCCTTCCAATTCCAAGTTCTTCTAGCTTT
TTAATCAATGCACTCTCAGAATAACGTGATGGAGGTTTAGTAAAGTGCTGTGAAAGATGAACGT
TAACTGGAGACACCAAGTCCTTAACCTCTAATTTGGACAAGGCCTCAAAGTTATCCTGGTGAAC
AGCATCAACCTCAGAATTGTAACTGGAAGGACTTGCTTCAGTGTCATCATATACAGCTTGGTAT
CCCTTGAAGTCAAGCCTTGATGCAGATGAATGAAAAATCATGTCTCCTTCAGAATTACCAATAT
CAACTTGAATCATATCAGTTCTAGAAGCTTCCATCTGGCAAGCCATAGTTCTTTTCCATATTAG
AGTATACAGTTTCAAAGAATCATCATCAAGTGCTCCGACCAAAGATGATGGCAACCTCCTTATG
CTGGTCGGCCTTATGGCTTCATGCGCTTCTTGAGCATTTTTCACCTTCTTGAAGTATTTTCTAA
TGCCCTCTGAAGCATATTCCTCACCATAC
						
					

						Genomic sequence
						
							CTGCAATACTTTCATTATAGATGCATATGTGGATGGCCTTCCAATTCCAAGTTCTTCTAGCTTT
TTAATCTGCAAATACCAAGGAAAAAATGATACATTCTTAAATATATCTGATAAAAAGGAAATAT
ATTTCTATACCAAGCATGGAAATGCCCAGAATGAACAGATAAAAAACCAACATATAGGTTATTA
CTGACCAATGCACTCTCAGAATAACGTGATGGAGGTTTAGTAAAGTGCTGTGAAAGATGAACGT
TAACTGGAGACACCAAGTCCTTAACCTGAGAAAAAGAAATGCAACAGTAACATGCTTATATAGT
TGAAAGACAGACAACAGTGCACATTAGCATAAAAAATAGGTCATATAGGAAGTGCATAGTTCAG
GTAATTTGACAGCTGCTGACCTCTAATTTGGACAAGGCCTCAAAGTTATCCTGGTGAACAGCAT
CAACCTCAGAATTGTAACTGGAAGGACTTGCTTCAGTGTCCTAAAAGGATAGCAAATTTTCCCG
TTACTGAGTTAAGCAAGCTAAACTGAACACTAGGCACAGAGTTCTTAATAGAAACGTAAGTACT
GATCGTTAGATCTCCAAAGGTAACATATTTTCTTAATAGAATATTAAACATAATGATAATCAGG
ACAGATCCATGCATCTCAGTGAAGATAGAATGCTCAAATAGAAGCTCTCTAGATAATTAAAATG
GAGGTAGCACCATGGCACAATCTCGTATGTTCTACAAAATTGGCAATTTCATGTATCAATTACT
CATAATAGAATTAGGATTTAGGAAACATAAAAATGGCAGAATCAAAAGAAAATATAGGATCACC
TAGTCAGATACTCAGATGTGTGTATCCAATTCTAGCTTAGCAGCGCATATGACAGATAATATAA
CTCTTTTTTTAAAAAAAGAAAAAACTAGGGTCCACATCAGCCTAAGCCTAGGACTTATCCAAGT
TGTCCCAGGATGTCACATGGTCCATATAGGCATACATATAAAAAGAAACAATACTGCAAATATG
GTAAAGTCATCTAGCAATGATGTAATCATCCCTTGCACAATGACACAATATGGTCAATATATCA
TTCAATAGATGGAACATACCATGAAGCCACTGATGCACTGAGAGAAATAGCTTAAAAGAGTGGA
AGGCCACAGTAAAAGAATTCAACATATTTCCTTATAAAGTTGAGGCAGGATAAAGCCAAACCTA
GGCAAAGACAAGTAAACTATACAGGATTTTCTGAATGTACACAGGATGTGACAAGCATGGATAG
AAAAAGTCTACAACTTACATCATATACAGCTTGGTATCCCTTGAAGTCAAGCCTTGATGCAGAT
GAATGAAAAATCATGTCTCCTTCAGAATTACCAATATCAACTTGAATCTACAATACAATTATAA
GAGGTCATACTCTAAACATGAACTTTGATTGAATCTTTTAGATATTGAAAAACTGCATACATCC
ACACCAAAAGATATCCAGAGAATTTGGCATAATACATGCTAGGGAAAATGGATCCCACTTCTGT
ATTACAACACCAACATATTATATTTAGCACAAAGGCATGCCCTGCCACTGTATCTGGCCTCTTC
GAAGTGCTTGTCAGCAGTTCATAAAGCAAATTGGCTATTATTAAATAGAAGACCAATTACTCAT
AAGAAATATGGATACATTCAACCAGAATTATGCAAAGCTTAGTCACAGAAATGAAACACTCATC
TATGAAAGGAATAAATTTGCTTGGTTACCAATGTTTTTTATTTGATGACATGTCTTTGTGAAAC
ATTTAGGATAGAACCCAAAAGAAGAATTCATACATTCACGAATACTTGACACATTTTGACAATT
TATATTAGTCGCAGAAGCTTACAGCTTCTCCAATCAACTGTTTCTTGGGTGGAATTTCGTAGAG
TAGCCTACTATATATAATACCACCCAATTTACTTCATTGTTTTCTTCTTCTTGAGGAATCATTA
GGTGATTGAATGCATTTGGTCAAATAAATCTAAACCATGCTTTCTATAGTAAGAAAACAATCCA
TAATCAGAAAAGCAACATGTAAAAGGAATATCAGTAGTAAATAGCCGTAGATAAAATGAGGGGA
AAGTGCAAACCATATCAGTTCTAGAAGCTTCCATCTGGCAAGCCATAGTTCTTTTCCATATTAG
AGTATACAGTTTCAAAGAATCATCATCAAGTGCTCCGACCAAAGATGCTGTAAGGGATTTTACA
ACACAACTATGTCAAAAGACAGAAACTTATACAAAGAACTAAATAGTCTGCAGAATTCAAACAA
GACCAAAGTTTATTTTTGGCAACCCATAATAACTTTGTAAATTAACAAAATTCATCCTTCAGGC
ACTTTTTTAATCGTACAGAAGATGCCGACCTCGGGTGAAAATATATTTGCAGCAAATGGAAAAA
CATTTCTCCCTAAATGAAGCAAAGATGGTCTAAAGTGCAAAATTTAGTAAAACTGTATATGAGG
CTGTTTGTAAAACAAGCAAGGAAATGTTAGATGTTGAATAGTGGGAGACATAGTACTGCAAAGA
ACAGTTCTATTATGCACTAAATTATACAGTACACTTTTAACAGACAACAATTAAAACATTCATA
CACCACATACCAAAGAAAATATTAGTTATGTTGATATGTTTAAGTGCGATATGCACAAATTCAT
AAAAGCTTTACTGCCAGCTATACCATCAAACATACCAATTTGAAAGATAAACATGAAACATGTA
TATTGGTACAAAGCAAAATGGTAGTTTGTTGATCTTTTAAGTCTGATGTGCACTAACTTATATA
AGTTCTATTCATATTTCTAATTTTTCAACAGGTTGCTAGTACGATCTATGTAGTAGAGTAGTAG
GCATTTGTTACTTCCCTGAAAGTACATCAAAATATTGTAACTACTGAAAGTCATTCAAACAATT
AAAAATCCAAGAAGGACAAATAAGTAAGAAAAGCACAATACTTCAAATTTTCTGTATACTAACA
TTTAGTGTGACATTCAAAGTTTTCGACAGGAAGTGACAAAATATTGGCCACCTATGAAATCTGG
AAAATTAGAGGCGACTAGTACATAAGAGATCTCCAATACCCTTTTTTATAACCATGTTTGGTAC
ACAACAAATTTGGTCATTTATATACAATAATTAATTAAATATTTACATTGTGATCTCCACAAGG
CAATAGGTATATACTAAATCAAGTCTGAAACCAAATGAAGTTGCTAGATTTTTTTTAGATAATG
AAATGAAGTTGCTAGATGTAATGCAGCATCTGTAATCAATAGAACGCAATAATTTGTAAAGAAG
TGCAGGTAGATTTCATTACATGGCAACCTCCTTATGCTGGTCGGCCTTATGGCTTCATGCGCTT
CTTGAGCATTTTTCACCTTCTTGAAGTATTTTCTAATGCCCTCTGAAGCATATTCCTCACCATA
C
						
					

			
		

Sequences
Splice junction sequence	CCTTATGCTGGTCGGCCTTATGGCTTCATGCGCTTCTTGAGCATTTTTCACCTTCTTGAAGTAT TTTCTAATGCCCTCTGAAGCATATTCCTCACCATACctgcaatactttcattatagatgcatat gtggatggccttccaattccaagttcttctagctttttaatctgcaaataccaaggaaaaaatg atacattc
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: 541 Transcript exons: 9846991-9847059,9847188-9847271,9847395-9847478,9848289- 9848381,9849113-9849213,9850338-9850447 CTGCAATACTTTCATTATAGATGCATATGTGGATGGCCTTCCAATTCCAAGTTCTTCTAGCTTT TTAATCAATGCACTCTCAGAATAACGTGATGGAGGTTTAGTAAAGTGCTGTGAAAGATGAACGT TAACTGGAGACACCAAGTCCTTAACCTCTAATTTGGACAAGGCCTCAAAGTTATCCTGGTGAAC AGCATCAACCTCAGAATTGTAACTGGAAGGACTTGCTTCAGTGTCATCATATACAGCTTGGTAT CCCTTGAAGTCAAGCCTTGATGCAGATGAATGAAAAATCATGTCTCCTTCAGAATTACCAATAT CAACTTGAATCATATCAGTTCTAGAAGCTTCCATCTGGCAAGCCATAGTTCTTTTCCATATTAG AGTATACAGTTTCAAAGAATCATCATCAAGTGCTCCGACCAAAGATGATGGCAACCTCCTTATG CTGGTCGGCCTTATGGCTTCATGCGCTTCTTGAGCATTTTTCACCTTCTTGAAGTATTTTCTAA TGCCCTCTGAAGCATATTCCTCACCATAC
Genomic sequence	CTGCAATACTTTCATTATAGATGCATATGTGGATGGCCTTCCAATTCCAAGTTCTTCTAGCTTT TTAATCTGCAAATACCAAGGAAAAAATGATACATTCTTAAATATATCTGATAAAAAGGAAATAT ATTTCTATACCAAGCATGGAAATGCCCAGAATGAACAGATAAAAAACCAACATATAGGTTATTA CTGACCAATGCACTCTCAGAATAACGTGATGGAGGTTTAGTAAAGTGCTGTGAAAGATGAACGT TAACTGGAGACACCAAGTCCTTAACCTGAGAAAAAGAAATGCAACAGTAACATGCTTATATAGT TGAAAGACAGACAACAGTGCACATTAGCATAAAAAATAGGTCATATAGGAAGTGCATAGTTCAG GTAATTTGACAGCTGCTGACCTCTAATTTGGACAAGGCCTCAAAGTTATCCTGGTGAACAGCAT CAACCTCAGAATTGTAACTGGAAGGACTTGCTTCAGTGTCCTAAAAGGATAGCAAATTTTCCCG TTACTGAGTTAAGCAAGCTAAACTGAACACTAGGCACAGAGTTCTTAATAGAAACGTAAGTACT GATCGTTAGATCTCCAAAGGTAACATATTTTCTTAATAGAATATTAAACATAATGATAATCAGG ACAGATCCATGCATCTCAGTGAAGATAGAATGCTCAAATAGAAGCTCTCTAGATAATTAAAATG GAGGTAGCACCATGGCACAATCTCGTATGTTCTACAAAATTGGCAATTTCATGTATCAATTACT CATAATAGAATTAGGATTTAGGAAACATAAAAATGGCAGAATCAAAAGAAAATATAGGATCACC TAGTCAGATACTCAGATGTGTGTATCCAATTCTAGCTTAGCAGCGCATATGACAGATAATATAA CTCTTTTTTTAAAAAAAGAAAAAACTAGGGTCCACATCAGCCTAAGCCTAGGACTTATCCAAGT TGTCCCAGGATGTCACATGGTCCATATAGGCATACATATAAAAAGAAACAATACTGCAAATATG GTAAAGTCATCTAGCAATGATGTAATCATCCCTTGCACAATGACACAATATGGTCAATATATCA TTCAATAGATGGAACATACCATGAAGCCACTGATGCACTGAGAGAAATAGCTTAAAAGAGTGGA AGGCCACAGTAAAAGAATTCAACATATTTCCTTATAAAGTTGAGGCAGGATAAAGCCAAACCTA GGCAAAGACAAGTAAACTATACAGGATTTTCTGAATGTACACAGGATGTGACAAGCATGGATAG AAAAAGTCTACAACTTACATCATATACAGCTTGGTATCCCTTGAAGTCAAGCCTTGATGCAGAT GAATGAAAAATCATGTCTCCTTCAGAATTACCAATATCAACTTGAATCTACAATACAATTATAA GAGGTCATACTCTAAACATGAACTTTGATTGAATCTTTTAGATATTGAAAAACTGCATACATCC ACACCAAAAGATATCCAGAGAATTTGGCATAATACATGCTAGGGAAAATGGATCCCACTTCTGT ATTACAACACCAACATATTATATTTAGCACAAAGGCATGCCCTGCCACTGTATCTGGCCTCTTC GAAGTGCTTGTCAGCAGTTCATAAAGCAAATTGGCTATTATTAAATAGAAGACCAATTACTCAT AAGAAATATGGATACATTCAACCAGAATTATGCAAAGCTTAGTCACAGAAATGAAACACTCATC TATGAAAGGAATAAATTTGCTTGGTTACCAATGTTTTTTATTTGATGACATGTCTTTGTGAAAC ATTTAGGATAGAACCCAAAAGAAGAATTCATACATTCACGAATACTTGACACATTTTGACAATT TATATTAGTCGCAGAAGCTTACAGCTTCTCCAATCAACTGTTTCTTGGGTGGAATTTCGTAGAG TAGCCTACTATATATAATACCACCCAATTTACTTCATTGTTTTCTTCTTCTTGAGGAATCATTA GGTGATTGAATGCATTTGGTCAAATAAATCTAAACCATGCTTTCTATAGTAAGAAAACAATCCA TAATCAGAAAAGCAACATGTAAAAGGAATATCAGTAGTAAATAGCCGTAGATAAAATGAGGGGA AAGTGCAAACCATATCAGTTCTAGAAGCTTCCATCTGGCAAGCCATAGTTCTTTTCCATATTAG AGTATACAGTTTCAAAGAATCATCATCAAGTGCTCCGACCAAAGATGCTGTAAGGGATTTTACA ACACAACTATGTCAAAAGACAGAAACTTATACAAAGAACTAAATAGTCTGCAGAATTCAAACAA GACCAAAGTTTATTTTTGGCAACCCATAATAACTTTGTAAATTAACAAAATTCATCCTTCAGGC ACTTTTTTAATCGTACAGAAGATGCCGACCTCGGGTGAAAATATATTTGCAGCAAATGGAAAAA CATTTCTCCCTAAATGAAGCAAAGATGGTCTAAAGTGCAAAATTTAGTAAAACTGTATATGAGG CTGTTTGTAAAACAAGCAAGGAAATGTTAGATGTTGAATAGTGGGAGACATAGTACTGCAAAGA ACAGTTCTATTATGCACTAAATTATACAGTACACTTTTAACAGACAACAATTAAAACATTCATA CACCACATACCAAAGAAAATATTAGTTATGTTGATATGTTTAAGTGCGATATGCACAAATTCAT AAAAGCTTTACTGCCAGCTATACCATCAAACATACCAATTTGAAAGATAAACATGAAACATGTA TATTGGTACAAAGCAAAATGGTAGTTTGTTGATCTTTTAAGTCTGATGTGCACTAACTTATATA AGTTCTATTCATATTTCTAATTTTTCAACAGGTTGCTAGTACGATCTATGTAGTAGAGTAGTAG GCATTTGTTACTTCCCTGAAAGTACATCAAAATATTGTAACTACTGAAAGTCATTCAAACAATT AAAAATCCAAGAAGGACAAATAAGTAAGAAAAGCACAATACTTCAAATTTTCTGTATACTAACA TTTAGTGTGACATTCAAAGTTTTCGACAGGAAGTGACAAAATATTGGCCACCTATGAAATCTGG AAAATTAGAGGCGACTAGTACATAAGAGATCTCCAATACCCTTTTTTATAACCATGTTTGGTAC ACAACAAATTTGGTCATTTATATACAATAATTAATTAAATATTTACATTGTGATCTCCACAAGG CAATAGGTATATACTAAATCAAGTCTGAAACCAAATGAAGTTGCTAGATTTTTTTTAGATAATG AAATGAAGTTGCTAGATGTAATGCAGCATCTGTAATCAATAGAACGCAATAATTTGTAAAGAAG TGCAGGTAGATTTCATTACATGGCAACCTCCTTATGCTGGTCGGCCTTATGGCTTCATGCGCTT CTTGAGCATTTTTCACCTTCTTGAAGTATTTTCTAATGCCCTCTGAAGCATATTCCTCACCATA C

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006661* osi_circ_011701 						
					
						PMCS
						0.215183181

Conservation Information
Conserved circRNAs	osi_circ_006661* osi_circ_011701
PMCS	0.215183181

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9850419-9847047(+)
9849150-9850441(-)
						
						Potential amino acid sequence
						
							MPSEAYSSPYLQYFHYRCICGWPSNSKFF*(+)
MACQMEASRTDMIQVDIGNSEGDMIFHSSASRLDFKGYQAVYDDTEASPSSYNSEVDAVHQDNF
EALSKLEVKDLVSPVNVHLSQHFTKPPSRYSESALIKKLEELGIGRPSTYASIMKVLQVW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9850419-9847047(+) 9849150-9850441(-)
Potential amino acid sequence	MPSEAYSSPYLQYFHYRCICGWPSNSKFF(+) MACQMEASRTDMIQVDIGNSEGDMIFHSSASRLDFKGYQAVYDDTEASPSSYNSEVDAVHQDNF EALSKLEVKDLVSPVNVHLSQHFTKPPSRYSESALIKKLEELGIGRPSTYASIMKVLQVW(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0281400_circ_g.4

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