Plant Circular RNA Database

Detail information of Os11g0703900_circ_g.88

			
						 General Information
					
						CircRNA Name
						Os11g0703900_circ_g.88
					
						ID in PlantcircBase
						osa_circ_010173
					
						Alias
						Os11circ10042
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 28807822-28808181  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os11g0703900						
					
						Parent gene annotation
						
							Heat shock protein 70. (Os11t0703900-01);Similar to Heat shock p
rotein 70. (Os11t0703900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0703900_circ_g.14 Os11g0703900_circ_g.15 Os11g0703900_circ_g.16 Os11g0703900_circ_g.17 Os11g0703900_circ_g.18 Os11g0703900_circ_g.19 Os11g0703900_circ_g.20 Os11g0703900_circ_g.21 Os11g0703900_circ_g.22 Os11g0703900_circ_g.23 Os11g0703900_circ_g.24 Os11g0703900_circ_g.25 Os11g0703900_circ_g.26 Os11g0703900_circ_g.27 Os11g0703900_circ_g.28 Os11g0703900_circ_g.29 Os11g0703900_circ_g.30 Os11g0703900_circ_g.31 Os11g0703900_circ_g.32 Os11g0703900_circ_g.33 Os11g0703900_circ_g.34 Os11g0703900_circ_g.35 Os11g0703900_circ_g.36 Os11g0703900_circ_g.37 Os11g0703900_circ_g.38 Os11g0703900_circ_g.39 Os11g0703900_circ_g.40 Os11g0703900_circ_g.41 Os11g0703900_circ_g.42 Os11g0703900_circ_g.43 Os11g0703900_circ_g.44 Os11g0703900_circ_g.45 Os11g0703900_circ_g.46 Os11g0703900_circ_g.47 Os11g0703900_circ_g.48 Os11g0703900_circ_g.49 Os11g0703900_circ_g.50 Os11g0703900_circ_g.51 Os11g0703900_circ_g.52 Os11g0703900_circ_g.53 Os11g0703900_circ_g.54 Os11g0703900_circ_g.55 Os11g0703900_circ_g.56 Os11g0703900_circ_g.57 Os11g0703900_circ_g.58 Os11g0703900_circ_g.59 Os11g0703900_circ_g.60 Os11g0703900_circ_g.61 Os11g0703900_circ_g.62 Os11g0703900_circ_g.63 Os11g0703900_circ_g.64 Os11g0703900_circ_g.65 Os11g0703900_circ_g.66 Os11g0703900_circ_g.67 Os11g0703900_circ_g.68 Os11g0703900_circ_g.69 Os11g0703900_circ_g.70 Os11g0703900_circ_g.71 Os11g0703900_circ_g.72 Os11g0703900_circ_g.73 Os11g0703900_circ_g.74 Os11g0703900_circ_g.75 Os11g0703900_circ_g.76 Os11g0703900_circ_g.77 Os11g0703900_circ_g.78 Os11g0703900_circ_g.79 Os11g0703900_circ_g.80 Os11g0703900_circ_g.81 Os11g0703900_circ_g.82 Os11g0703900_circ_g.83 Os11g0703900_circ_g.84 Os11g0703900_circ_g.85 Os11g0703900_circ_g.86 Os11g0703900_circ_g.87 Os11g0703900_circ_g.89 Os11g0703900_circ_g.90 Os11g0703900_circ_g.91 Os11g0703900_circ_g.92 Os11g0703900_circ_g.93 Os11g0703900_circ_g.94 Os11g0703900_circ_g.95 						
					
						Support reads
						4
					
						Tissues
						leaf and panicle
					
						Exon boundary  
						
							No-No							"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
						Os11t0703900-01:1
Os11t0703900-02:1

General Information
CircRNA Name	Os11g0703900_circ_g.88
ID in PlantcircBase	osa_circ_010173
Alias	Os11circ10042
Organism	Oryza sativa
Position	chr11: 28807822-28808181 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os11g0703900
Parent gene annotation	Heat shock protein 70. (Os11t0703900-01);Similar to Heat shock p rotein 70. (Os11t0703900-02)
Parent gene strand	+
Alternative splicing	Os11g0703900_circ_g.14 Os11g0703900_circ_g.15 Os11g0703900_circ_g.16 Os11g0703900_circ_g.17 Os11g0703900_circ_g.18 Os11g0703900_circ_g.19 Os11g0703900_circ_g.20 Os11g0703900_circ_g.21 Os11g0703900_circ_g.22 Os11g0703900_circ_g.23 Os11g0703900_circ_g.24 Os11g0703900_circ_g.25 Os11g0703900_circ_g.26 Os11g0703900_circ_g.27 Os11g0703900_circ_g.28 Os11g0703900_circ_g.29 Os11g0703900_circ_g.30 Os11g0703900_circ_g.31 Os11g0703900_circ_g.32 Os11g0703900_circ_g.33 Os11g0703900_circ_g.34 Os11g0703900_circ_g.35 Os11g0703900_circ_g.36 Os11g0703900_circ_g.37 Os11g0703900_circ_g.38 Os11g0703900_circ_g.39 Os11g0703900_circ_g.40 Os11g0703900_circ_g.41 Os11g0703900_circ_g.42 Os11g0703900_circ_g.43 Os11g0703900_circ_g.44 Os11g0703900_circ_g.45 Os11g0703900_circ_g.46 Os11g0703900_circ_g.47 Os11g0703900_circ_g.48 Os11g0703900_circ_g.49 Os11g0703900_circ_g.50 Os11g0703900_circ_g.51 Os11g0703900_circ_g.52 Os11g0703900_circ_g.53 Os11g0703900_circ_g.54 Os11g0703900_circ_g.55 Os11g0703900_circ_g.56 Os11g0703900_circ_g.57 Os11g0703900_circ_g.58 Os11g0703900_circ_g.59 Os11g0703900_circ_g.60 Os11g0703900_circ_g.61 Os11g0703900_circ_g.62 Os11g0703900_circ_g.63 Os11g0703900_circ_g.64 Os11g0703900_circ_g.65 Os11g0703900_circ_g.66 Os11g0703900_circ_g.67 Os11g0703900_circ_g.68 Os11g0703900_circ_g.69 Os11g0703900_circ_g.70 Os11g0703900_circ_g.71 Os11g0703900_circ_g.72 Os11g0703900_circ_g.73 Os11g0703900_circ_g.74 Os11g0703900_circ_g.75 Os11g0703900_circ_g.76 Os11g0703900_circ_g.77 Os11g0703900_circ_g.78 Os11g0703900_circ_g.79 Os11g0703900_circ_g.80 Os11g0703900_circ_g.81 Os11g0703900_circ_g.82 Os11g0703900_circ_g.83 Os11g0703900_circ_g.84 Os11g0703900_circ_g.85 Os11g0703900_circ_g.86 Os11g0703900_circ_g.87 Os11g0703900_circ_g.89 Os11g0703900_circ_g.90 Os11g0703900_circ_g.91 Os11g0703900_circ_g.92 Os11g0703900_circ_g.93 Os11g0703900_circ_g.94 Os11g0703900_circ_g.95
Support reads	4
Tissues	leaf and panicle
Exon boundary	No-No "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	Os11t0703900-01:1 Os11t0703900-02:1

			
						 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  
						
							CAAGATGTACCAGGGCGCTGGCGCGGACATGGCCGGCGGCATGGACGAGGACGATGCTCCCCCG
GCTGGCGGCAGCGGTGCTGGCCCCAAGATCGAGGAGgccgagaagtacaagtcagaggatgagg
agcacaagaagaaggtggagtccaagaacgcgctggagaactacgcctacaacatgcgcaacac
catcaagg

						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
						
							GCCGAGAAGTACAAGTCAGAGGATGAGGAGCACAAGAAGAAGGTGGAGTCCAAGAACGCGCTGG
AGAACTACGCCTACAACATGCGCAACACCATCAAGGATGAGAAGATCGCCTCGAAGCTCCCGGC
AGCGGACAAGAAGAAGATCGAGGATGCCATCGACCAGGCCATCCAGTGGCTGGACGGCAACCAG
CTCGCTGAGGCTGATGAGTTCGATGACAAGATGAAGGAGCTGGAGGGCATCTGCAACCCCATCA
TCGCCAAGATGTACCAGGGCGCTGGCGCGGACATGGCCGGCGGCATGGACGAGGACGATGCTCC
CCCGGCTGGCGGCAGCGGTGCTGGCCCCAAGATCGAGGAG

Sequences
Splice junction sequence	CAAGATGTACCAGGGCGCTGGCGCGGACATGGCCGGCGGCATGGACGAGGACGATGCTCCCCCG GCTGGCGGCAGCGGTGCTGGCCCCAAGATCGAGGAGgccgagaagtacaagtcagaggatgagg agcacaagaagaaggtggagtccaagaacgcgctggagaactacgcctacaacatgcgcaacac catcaagg
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	GCCGAGAAGTACAAGTCAGAGGATGAGGAGCACAAGAAGAAGGTGGAGTCCAAGAACGCGCTGG AGAACTACGCCTACAACATGCGCAACACCATCAAGGATGAGAAGATCGCCTCGAAGCTCCCGGC AGCGGACAAGAAGAAGATCGAGGATGCCATCGACCAGGCCATCCAGTGGCTGGACGGCAACCAG CTCGCTGAGGCTGATGAGTTCGATGACAAGATGAAGGAGCTGGAGGGCATCTGCAACCCCATCA TCGCCAAGATGTACCAGGGCGCTGGCGCGGACATGGCCGGCGGCATGGACGAGGACGATGCTCC CCCGGCTGGCGGCAGCGGTGCTGGCCCCAAGATCGAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_009219 osi_circ_009218 						
					
						PMCS
						1.257841732

Conservation Information
Conserved circRNAs	osi_circ_009219 osi_circ_009218
PMCS	1.257841732

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os11g0703900_circ_g.88

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