Plant Circular RNA Database

Detail information of Os04g0605500_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os04g0605500_circ_g.10
					
						ID in PlantcircBase
						osa_circ_025114
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 30579976-30581870  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os04g0605500						
					
						Parent gene annotation
						
							P-type IIB Ca(2+) ATPase, Stress tolerance (Os04t0605500-01);Sim
ilar to Calcium-transporting ATPase 8, plasma membrane-type (EC 
3.6.3.8) (Ca(2+)-ATPase isoform 8). (Os04t0605500-02);Similar to
 P-type ATPase (Fragment). (Os04t0605500-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0605500_circ_g.9 						
					
						Support reads
						4
					
						Tissues
						seed
					
						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
						Os04t0605500-01:8
Os04t0605500-02:8

General Information
CircRNA Name	Os04g0605500_circ_g.10
ID in PlantcircBase	osa_circ_025114
Alias	NA
Organism	Oryza sativa
Position	chr4: 30579976-30581870 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os04g0605500
Parent gene annotation	P-type IIB Ca(2+) ATPase, Stress tolerance (Os04t0605500-01);Sim ilar to Calcium-transporting ATPase 8, plasma membrane-type (EC 3.6.3.8) (Ca(2+)-ATPase isoform 8). (Os04t0605500-02);Similar to P-type ATPase (Fragment). (Os04t0605500-03)
Parent gene strand	-
Alternative splicing	Os04g0605500_circ_g.9
Support reads	4
Tissues	seed
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	Os04t0605500-01:8 Os04t0605500-02:8

			
						 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  
						
							GTGCACGAATTTTGCTTATAACTTCCTCCCTTTGTTCCTCCCTTTTCAAGTCCAATGTGTATCT
AAAGCGCCTGGATGCATTGAGTACTAGAGCTGCTTGctggtcaccaattttaagtggcacaaca
tcaccagcaaccaaatcataaatggataccgagattcgccttccacctctaaccacctgaaaga
aaaattgt

									
								

					

						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
						
							CTGGTCACCAATTTTAAGTGGCACAACATCACCAGCAACCAAATCATAAATGGATACCGAGATT
CGCCTTCCACCTCTAACCACCTGAAAGAAAAATTGTCAGGTGTGAATTAAGAAACAAAAGAAGT
ACTGATTAAAAGTATCTGGAATTTAACAACCTCCAATTTGATGTTCTGCTTTTCCTCATTAAGA
TTTTGAAACTGTAAGGATTGCTTGTAATCGCTAGTTGCTGAAACAAATGGCAAACGTTAGAAGC
AAATAGATTTCAATAGATCGCAGATAACTACAAAAAGTTTCAGGACACATTTATTTGAGTTGGC
TGGACAAGTCCAAAGCACTACACATATTGTGTAATTAGTCCATACCATCAACGGTTTAGCATTC
CCTACTTTATGCCAGTAGGTGAGACATTACTGACAGTAATGCAACAGATAAACCTTCTAAAAGT
GGATTAACATATTAATCGACCATAGAAATAATCAGGTAAGATGATTGATCTAACTAATTACATA
CCTGTAACAACAACAACTAGGAGAACAGCAAAAGCAATGCTTGCTCCATCATACCAGCCTTCTT
TTATCCCCTACACACAAAAAAGGAGTTAATTAACTCCAAAAATAATGAAAGTTATAGCTACAAA
CCAAAAAAAAAAACAGCGATAAACAGTAAGTGGCAAATGGCCAAGCAAACATCAAAGGGAAAAG
AAACAGGATGGCAGCTAGACTTGCAAATATACAAATGCTGGATGAAACTGGACTAAATTTAGTG
GTTAATGACACCAGGCAAATAATAATAACAATAGGGGGCAAACAAGTCAGTGAGACAGTAAGAG
ATGATATTTGGTCAATTCAGGAAGCAAAGAATTGAGTAATGAAATCCTACCTCTGTTGTTATGC
CCAAAGCAAGTGATACTGCTGCAGCAACCATGAGAATGATAAGTGTCAAATCTTTACAAGCATC
CCATAAGAAAGCCTAAACAAAAGTGTCAGTACACCAATAATGAGCATCAAAAAGGGAAAAAATG
CTATACAAATATTAAAGAATTCTCAGCAGTCAGCATACCAGGAAGCTTCTTCCTTTCTTACGAG
GGTATGTATTCGATCCAAATGCATTTCGTCTTGCAGTCAAATCTGAATCATCTCCACTAATCCC
CTTCTCTGTGTCTGTCTTTAGCATGCGCGCTACCCCAGAAATCTGTGGACGAAGTCACAAGGTG
TAAACTGTTTTGCACATACATGTAAGGACAATGGCACAAGAAATACTCACCCCTCCATACTGTT
GTAGAGCAGAGTAATTGTGATCTCTGGTCAATGCAGTAAGTTGGTCTTCTTTGATACCAAAGCC
CAGTGCACCATCAACTGGCGGTGCTGCAAAGTCAATATTGTAGCAAACATTGAGTAACAGCGAG
AACAAAACATACAACCCTTCCATGGATGTACTCTAAATTCTTATCGCTATCATATAGCAACTGC
GCTCCAGTAAAGCATTCATAGATGTCCCACTTCTAGAATATATGACCATTGCAAACCACAGGCA
ACCATAGTGACAAGAAAATAAAGTTTAACAAGTTACACGAAACTCTGATATATTATCGTGCAGA
ACATGAAAACTCTGAACCAAATATTGAATATGTAGAAATAGAAATAACACCTGCCACCTCCTTT
TGCTGAACGTGGACTTGTCCTGCTTCTTTAAAGCGGAATGCAGCCTGAAGAAGGAAATCAAGAC
ATCAGCTGAAACTAAGGGAAAAAAAAACAAAAAAAAGTAATGATATTCACCCTGACAACATGAG
CTTGTGCACGAATTTTGCTTATAACTTCCTCCCTTTGTTCCTCCCTTTTCAAGTCCAATGTGTA
TCTAAAGCGCCTGGATGCATTGAGTACTAGAGCTGCTTG
						
					

			
		

Sequences
Splice junction sequence	GTGCACGAATTTTGCTTATAACTTCCTCCCTTTGTTCCTCCCTTTTCAAGTCCAATGTGTATCT AAAGCGCCTGGATGCATTGAGTACTAGAGCTGCTTGctggtcaccaattttaagtggcacaaca tcaccagcaaccaaatcataaatggataccgagattcgccttccacctctaaccacctgaaaga aaaattgt
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	CTGGTCACCAATTTTAAGTGGCACAACATCACCAGCAACCAAATCATAAATGGATACCGAGATT CGCCTTCCACCTCTAACCACCTGAAAGAAAAATTGTCAGGTGTGAATTAAGAAACAAAAGAAGT ACTGATTAAAAGTATCTGGAATTTAACAACCTCCAATTTGATGTTCTGCTTTTCCTCATTAAGA TTTTGAAACTGTAAGGATTGCTTGTAATCGCTAGTTGCTGAAACAAATGGCAAACGTTAGAAGC AAATAGATTTCAATAGATCGCAGATAACTACAAAAAGTTTCAGGACACATTTATTTGAGTTGGC TGGACAAGTCCAAAGCACTACACATATTGTGTAATTAGTCCATACCATCAACGGTTTAGCATTC CCTACTTTATGCCAGTAGGTGAGACATTACTGACAGTAATGCAACAGATAAACCTTCTAAAAGT GGATTAACATATTAATCGACCATAGAAATAATCAGGTAAGATGATTGATCTAACTAATTACATA CCTGTAACAACAACAACTAGGAGAACAGCAAAAGCAATGCTTGCTCCATCATACCAGCCTTCTT TTATCCCCTACACACAAAAAAGGAGTTAATTAACTCCAAAAATAATGAAAGTTATAGCTACAAA CCAAAAAAAAAAACAGCGATAAACAGTAAGTGGCAAATGGCCAAGCAAACATCAAAGGGAAAAG AAACAGGATGGCAGCTAGACTTGCAAATATACAAATGCTGGATGAAACTGGACTAAATTTAGTG GTTAATGACACCAGGCAAATAATAATAACAATAGGGGGCAAACAAGTCAGTGAGACAGTAAGAG ATGATATTTGGTCAATTCAGGAAGCAAAGAATTGAGTAATGAAATCCTACCTCTGTTGTTATGC CCAAAGCAAGTGATACTGCTGCAGCAACCATGAGAATGATAAGTGTCAAATCTTTACAAGCATC CCATAAGAAAGCCTAAACAAAAGTGTCAGTACACCAATAATGAGCATCAAAAAGGGAAAAAATG CTATACAAATATTAAAGAATTCTCAGCAGTCAGCATACCAGGAAGCTTCTTCCTTTCTTACGAG GGTATGTATTCGATCCAAATGCATTTCGTCTTGCAGTCAAATCTGAATCATCTCCACTAATCCC CTTCTCTGTGTCTGTCTTTAGCATGCGCGCTACCCCAGAAATCTGTGGACGAAGTCACAAGGTG TAAACTGTTTTGCACATACATGTAAGGACAATGGCACAAGAAATACTCACCCCTCCATACTGTT GTAGAGCAGAGTAATTGTGATCTCTGGTCAATGCAGTAAGTTGGTCTTCTTTGATACCAAAGCC CAGTGCACCATCAACTGGCGGTGCTGCAAAGTCAATATTGTAGCAAACATTGAGTAACAGCGAG AACAAAACATACAACCCTTCCATGGATGTACTCTAAATTCTTATCGCTATCATATAGCAACTGC GCTCCAGTAAAGCATTCATAGATGTCCCACTTCTAGAATATATGACCATTGCAAACCACAGGCA ACCATAGTGACAAGAAAATAAAGTTTAACAAGTTACACGAAACTCTGATATATTATCGTGCAGA ACATGAAAACTCTGAACCAAATATTGAATATGTAGAAATAGAAATAACACCTGCCACCTCCTTT TGCTGAACGTGGACTTGTCCTGCTTCTTTAAAGCGGAATGCAGCCTGAAGAAGGAAATCAAGAC ATCAGCTGAAACTAAGGGAAAAAAAAACAAAAAAAAGTAATGATATTCACCCTGACAACATGAG CTTGTGCACGAATTTTGCTTATAACTTCCTCCCTTTGTTCCTCCCTTTTCAAGTCCAATGTGTA TCTAAAGCGCCTGGATGCATTGAGTACTAGAGCTGCTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130867779

Conservation Information
Conserved circRNAs	NA
PMCS	0.130867779

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30581153-30579978(-)
30580164-30581860(-)
						
						Potential amino acid sequence
						
							MLKTDTEKGISGDDSDLTARRNAFGSNTYPRKKGRSFLAFLWDACKDLTLIILMVAAAVSLALG
ITTEGIKEGWYDGASIAFAVLLVVVVTATSDYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIY
DLVAGDVVPLKIGDQQAALVLNASRRFRYTLDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQ
VHVQQKEVAAPPVDGALGFGIKEDQLTALTRDHNYSALQQYGGISGVARMLKTDTEKGISGDDS
DLTARRNAFGSNTYPRKKGRSFLAFLWDACKDLTLIILMVAAAVSLALGITTEGIKEGWYDGAS
IAFAVLLVVVVTATSDYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQ
QAALVLNASRRFRYTLDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQVHVQQKEVAAPPVDG
ALGFGIKEDQLTALTRDHNYSALQQYGGISGVARMLKTDTEKGISGDDSDLTARRNAFGSNTYP
RKKGRSFLAFLWDACKDLTLIILMVAAAVSLALGITTEGIKEGWYDGASIAFAVLLVVVVTATS
DYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQQAALVLNASRRFRYT
LDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQVHVQQKEVAAPPVDGALGFGIKEDQLTALT
RDHNYSALQQYGGISGVARMLKTDTEKGISGDDSDLTARRNAFGSNTYPRKKGRSFLAFLWDAC
KDLTLIILMVAAAVSLALGITTEGIKEGWYDGASIAFAVLLVVVVTATSDYKQSLQFQNLNEEK
QNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQ(-)
MRKSRTSNWRWLEVEGESRYPFMIWLLVMLCHLKLVTSKQL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30581153-30579978(-) 30580164-30581860(-)
Potential amino acid sequence	MLKTDTEKGISGDDSDLTARRNAFGSNTYPRKKGRSFLAFLWDACKDLTLIILMVAAAVSLALG ITTEGIKEGWYDGASIAFAVLLVVVVTATSDYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIY DLVAGDVVPLKIGDQQAALVLNASRRFRYTLDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQ VHVQQKEVAAPPVDGALGFGIKEDQLTALTRDHNYSALQQYGGISGVARMLKTDTEKGISGDDS DLTARRNAFGSNTYPRKKGRSFLAFLWDACKDLTLIILMVAAAVSLALGITTEGIKEGWYDGAS IAFAVLLVVVVTATSDYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQ QAALVLNASRRFRYTLDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQVHVQQKEVAAPPVDG ALGFGIKEDQLTALTRDHNYSALQQYGGISGVARMLKTDTEKGISGDDSDLTARRNAFGSNTYP RKKGRSFLAFLWDACKDLTLIILMVAAAVSLALGITTEGIKEGWYDGASIAFAVLLVVVVTATS DYKQSLQFQNLNEEKQNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQQAALVLNASRRFRYT LDLKREEQREEVISKIRAQAHVVRAAFRFKEAGQVHVQQKEVAAPPVDGALGFGIKEDQLTALT RDHNYSALQQYGGISGVARMLKTDTEKGISGDDSDLTARRNAFGSNTYPRKKGRSFLAFLWDAC KDLTLIILMVAAAVSLALGITTEGIKEGWYDGASIAFAVLLVVVVTATSDYKQSLQFQNLNEEK QNIKLEVVRGGRRISVSIYDLVAGDVVPLKIGDQ(-) MRKSRTSNWRWLEVEGESRYPFMIWLLVMLCHLKLVTSKQL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0605500_circ_g.10

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