Plant Circular RNA Database

Detail information of Os07g0409900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0409900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_033482
					
						Alias
						Os07circ06377
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 12797686-12798893  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os07g0409900						
					
						Parent gene annotation
						
							Plasma membrane-associated calcium-dependent protein kinase, Dir
ect phosphorylation and activation of MAPK, Negative reguration 
of rice immunity (Os07t0409900-01);Similar to Calcium-dependent 
protein kinase. (Os07t0409900-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0409900_circ_g.2 Os07g0409900_circ_g.3 Os07g0409900_circ_g.4 Os07g0409900_circ_g.5 Os07g0409900_circ_g.6 Os07g0409900_circ_g.7 						
					
						Support reads
						2/1
					
						Tissues
						leaf/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  
						
							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
						Os07t0409900-02:3
Os07t0409900-01:3

General Information
CircRNA Name	Os07g0409900_circ_g.1
ID in PlantcircBase	osa_circ_033482
Alias	Os07circ06377
Organism	Oryza sativa
Position	chr7: 12797686-12798893 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os07g0409900
Parent gene annotation	Plasma membrane-associated calcium-dependent protein kinase, Dir ect phosphorylation and activation of MAPK, Negative reguration of rice immunity (Os07t0409900-01);Similar to Calcium-dependent protein kinase. (Os07t0409900-02)
Parent gene strand	-
Alternative splicing	Os07g0409900_circ_g.2 Os07g0409900_circ_g.3 Os07g0409900_circ_g.4 Os07g0409900_circ_g.5 Os07g0409900_circ_g.6 Os07g0409900_circ_g.7
Support reads	2/1
Tissues	leaf/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	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	Os07t0409900-02:3 Os07t0409900-01:3

			
						 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  
						
							CACGGGGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCACAAGGAGTGATATTTGGCCA
GGGCTTGCGACGAAAATCTGGCTTGTTTTTCAACACctgcttcagttcttccagactaattgtt
ccattcttgtcaacatcaatggcattgaactggtcacgaagatcagacaactcttctgcattta
gtgtagaa

									
								

					

						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: 351
Transcript exons: 12797686-12797793,12797882-12797997,12798767-12798893
CTGCTTCAGTTCTTCCAGACTAATTGTTCCATTCTTGTCAACATCAATGGCATTGAACTGGTCA
CGAAGATCAGACAACTCTTCTGCATTTAGTGTAGAAGCTAACGCCCGTAAAGCAAATTGCTTAA
ACCGACTGTATTTTACAAACTGACGCATATTATGTAATACAGATATATCTAGAGGTATATCAGA
TGCCTGTCCTCCTTCTCTCACCCATTCATGTGATAATGCCTGAGCAGCAGTTAATCTTGCACGG
GGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCACAAGGAGTGATATTTGGCCAGGGCT
TGCGACGAAAATCTGGCTTGTTTTTCAACAC
						
					

						Genomic sequence
						
							CTGCTTCAGTTCTTCCAGACTAATTGTTCCATTCTTGTCAACATCAATGGCATTGAACTGGTCA
CGAAGATCAGACAACTCTTCTGCATTTAGTGTAGAAGCTAACGCCTACAAGAGATGTAAACATT
TAAAATTGACTCCGAAATCATCCTGAGTCATGGATAAGATTCCCTTAAGTTATGGTATGATAAC
TTACCCGTAAAGCAAATTGCTTAAACCGACTGTATTTTACAAACTGACGCATATTATGTAATAC
AGATATATCTAGAGGTATATCAGATGCCTGTCCTCCTTCTCTCACCCATTCATGTGCTGAAGAA
AATAATATGTAAATTTTCATGTTAGTAGAGCACTGTGATAATAAGATTGTTTATTTTTATACCA
ACAGTATGCCATCTGTGATAACTGATAAATAACCAACTGAACAGCAAATGTTAGTTGCTATGAT
GTAATGAAAACATGAATTAGTTGGTATTGGTTATGTATCAATATTAGATTGTACCAAGCCTTAG
TAACTGAACCAACCATGTCTAACCATGAAAAAACAACATAAGATGTTTCTATCAAATTCAAGGT
ATAAGCTGTTATTTTACGCATGGTAATCAGAAAGTGCTACCATATACATAGCAATAACTTAACA
ATCAAATCGATAAAAGGCAATGGAGGTCTGAATTTCATGAGTAGCAAGCATAGCCACATGGCTT
CAAATAACAAGCCAAAGCTGAACCCCCAGCAGAAGTTAAACAAATAAGTATTAAGCTAACAGGG
AGTATGCACTGCAAACCCATTAATGATCGCTGAGTAAGCCTTTGAGGTTGGACCCTCATACATA
AGTTTCCAACCTGAAGGGGCCCTTCATAAATCCCCTTAGATATATCCCATCTAAGAGTCACCCA
GTAATCAAGTTGTGAATTTGCATGACTGCACTCAGACTTAGCAACAGTTTGCCACTAGAATCCC
ATTATTAAATAACCAGATTTGCAAACTTGCATTCAAGATGTCCCAAAATGATATAGAGTTTCCC
TAATCAGATTATCATACTTAAATTTAAGACATCCAAAAATGATATAAAGTTACATACATAATGC
CTGAGCAGCAGTTAATCTTGCACGGGGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCA
CAAGGAGTGATATTTGGCCAGGGCTTGCGACGAAAATCTGGCTTGTTTTTCAACAC
						
					

			
		

Sequences
Splice junction sequence	CACGGGGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCACAAGGAGTGATATTTGGCCA GGGCTTGCGACGAAAATCTGGCTTGTTTTTCAACACctgcttcagttcttccagactaattgtt ccattcttgtcaacatcaatggcattgaactggtcacgaagatcagacaactcttctgcattta gtgtagaa
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: 351 Transcript exons: 12797686-12797793,12797882-12797997,12798767-12798893 CTGCTTCAGTTCTTCCAGACTAATTGTTCCATTCTTGTCAACATCAATGGCATTGAACTGGTCA CGAAGATCAGACAACTCTTCTGCATTTAGTGTAGAAGCTAACGCCCGTAAAGCAAATTGCTTAA ACCGACTGTATTTTACAAACTGACGCATATTATGTAATACAGATATATCTAGAGGTATATCAGA TGCCTGTCCTCCTTCTCTCACCCATTCATGTGATAATGCCTGAGCAGCAGTTAATCTTGCACGG GGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCACAAGGAGTGATATTTGGCCAGGGCT TGCGACGAAAATCTGGCTTGTTTTTCAACAC
Genomic sequence	CTGCTTCAGTTCTTCCAGACTAATTGTTCCATTCTTGTCAACATCAATGGCATTGAACTGGTCA CGAAGATCAGACAACTCTTCTGCATTTAGTGTAGAAGCTAACGCCTACAAGAGATGTAAACATT TAAAATTGACTCCGAAATCATCCTGAGTCATGGATAAGATTCCCTTAAGTTATGGTATGATAAC TTACCCGTAAAGCAAATTGCTTAAACCGACTGTATTTTACAAACTGACGCATATTATGTAATAC AGATATATCTAGAGGTATATCAGATGCCTGTCCTCCTTCTCTCACCCATTCATGTGCTGAAGAA AATAATATGTAAATTTTCATGTTAGTAGAGCACTGTGATAATAAGATTGTTTATTTTTATACCA ACAGTATGCCATCTGTGATAACTGATAAATAACCAACTGAACAGCAAATGTTAGTTGCTATGAT GTAATGAAAACATGAATTAGTTGGTATTGGTTATGTATCAATATTAGATTGTACCAAGCCTTAG TAACTGAACCAACCATGTCTAACCATGAAAAAACAACATAAGATGTTTCTATCAAATTCAAGGT ATAAGCTGTTATTTTACGCATGGTAATCAGAAAGTGCTACCATATACATAGCAATAACTTAACA ATCAAATCGATAAAAGGCAATGGAGGTCTGAATTTCATGAGTAGCAAGCATAGCCACATGGCTT CAAATAACAAGCCAAAGCTGAACCCCCAGCAGAAGTTAAACAAATAAGTATTAAGCTAACAGGG AGTATGCACTGCAAACCCATTAATGATCGCTGAGTAAGCCTTTGAGGTTGGACCCTCATACATA AGTTTCCAACCTGAAGGGGCCCTTCATAAATCCCCTTAGATATATCCCATCTAAGAGTCACCCA GTAATCAAGTTGTGAATTTGCATGACTGCACTCAGACTTAGCAACAGTTTGCCACTAGAATCCC ATTATTAAATAACCAGATTTGCAAACTTGCATTCAAGATGTCCCAAAATGATATAGAGTTTCCC TAATCAGATTATCATACTTAAATTTAAGACATCCAAAAATGATATAAAGTTACATACATAATGC CTGAGCAGCAGTTAATCTTGCACGGGGATCCTTAACAAGCAACTTTTGTACAAAGTCTTTAGCA CAAGGAGTGATATTTGGCCAGGGCTTGCGACGAAAATCTGGCTTGTTTTTCAACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016972 						
					
						PMCS
						0.239964942

Conservation Information
Conserved circRNAs	osi_circ_016972
PMCS	0.239964942

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12797931-12797688(-)
						
						Potential amino acid sequence
						
							MRQFVKYSRFKQFALRALASTLNAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKP
WPNITPCAKDFVQKLLVKDPRARLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFK
QFALRALASTLNAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKPWPNITPCAKDF
VQKLLVKDPRARLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFKQFALRALASTL
NAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKPWPNITPCAKDFVQKLLVKDPRA
RLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFKQFALRALASTLNAEELSDLRDQ
FNAIDVDKNGTISLEELKQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12797931-12797688(-)
Potential amino acid sequence	MRQFVKYSRFKQFALRALASTLNAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKP WPNITPCAKDFVQKLLVKDPRARLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFK QFALRALASTLNAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKPWPNITPCAKDF VQKLLVKDPRARLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFKQFALRALASTL NAEELSDLRDQFNAIDVDKNGTISLEELKQVLKNKPDFRRKPWPNITPCAKDFVQKLLVKDPRA RLTAAQALSHEWVREGGQASDIPLDISVLHNMRQFVKYSRFKQFALRALASTLNAEELSDLRDQ FNAIDVDKNGTISLEELKQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os07g0409900_circ_g.1

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