Plant Circular RNA Database

Detail information of Os06g0114000_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os06g0114000_circ_g.10
					
						ID in PlantcircBase
						osa_circ_029404
					
						Alias
						Os06circ01230
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 812409-812731  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os06g0114066						
					
						Parent gene annotation
						
							Hypothetical protein. (Os06t0114066-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0114000_circ_g.1 Os06g0114000_circ_g.2 Os06g0114000_circ_g.3 Os06g0114000_circ_g.4 Os06g0114000_circ_g.5 Os06g0114000_circ_g.6 Os06g0114000_circ_g.7 Os06g0114000_circ_g.8 Os06g0114000_circ_g.9 Os06g0114000_circ_g.11 Os06g0114000_circ_g.12 Os06g0114000_circ_g.13 Os06g0114000_circ_g.14 Os06g0114000_circ_g.15 Os06g0114000_circ_g.16 Os06g0114000_circ_g.17 Os06g0114000_circ_g.18 Os06g0114000_circ_g.19 Os06g0114000_circ_g.20 Os06g0114000_circ_g.21 Os06g0114000_circ_g.22 Os06g0114000_circ_g.23 Os06g0114000_circ_g.24 Os06g0114000_circ_g.25 Os06g0114000_circ_g.26 Os06g0114000_circ_g.27 Os06g0114000_circ_g.28 Os06g0114000_circ_g.29 Os06g0114000_circ_g.30 Os06g0114000_circ_g.31 Os06g0114000_circ_g.32 						
					
						Support reads
						5/1
					
						Tissues
						leaf/shoot, 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
						Os06t0114000-02:2
Os06t0114000-03:2
Os06t0114000-04:2
Os06t0114066-00:2
Os06t0114000-02:2
Os06t0114000-03:2
Os06t0114000-04:2

General Information
CircRNA Name	Os06g0114000_circ_g.10
ID in PlantcircBase	osa_circ_029404
Alias	Os06circ01230
Organism	Oryza sativa
Position	chr6: 812409-812731 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os06g0114066
Parent gene annotation	Hypothetical protein. (Os06t0114066-00)
Parent gene strand	+
Alternative splicing	Os06g0114000_circ_g.1 Os06g0114000_circ_g.2 Os06g0114000_circ_g.3 Os06g0114000_circ_g.4 Os06g0114000_circ_g.5 Os06g0114000_circ_g.6 Os06g0114000_circ_g.7 Os06g0114000_circ_g.8 Os06g0114000_circ_g.9 Os06g0114000_circ_g.11 Os06g0114000_circ_g.12 Os06g0114000_circ_g.13 Os06g0114000_circ_g.14 Os06g0114000_circ_g.15 Os06g0114000_circ_g.16 Os06g0114000_circ_g.17 Os06g0114000_circ_g.18 Os06g0114000_circ_g.19 Os06g0114000_circ_g.20 Os06g0114000_circ_g.21 Os06g0114000_circ_g.22 Os06g0114000_circ_g.23 Os06g0114000_circ_g.24 Os06g0114000_circ_g.25 Os06g0114000_circ_g.26 Os06g0114000_circ_g.27 Os06g0114000_circ_g.28 Os06g0114000_circ_g.29 Os06g0114000_circ_g.30 Os06g0114000_circ_g.31 Os06g0114000_circ_g.32
Support reads	5/1
Tissues	leaf/shoot, 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	Os06t0114000-02:2 Os06t0114000-03:2 Os06t0114000-04:2 Os06t0114066-00:2 Os06t0114000-02:2 Os06t0114000-03:2 Os06t0114000-04:2

			
						 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  
						
							CTCAAAGCAGTTATAACAACAGACTAACCTTGGTAGCATTTAGGGCATCCTCAACTCTCAACTT
CTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCCCACcttctgctcatcattctccaggttgtcc
ttgatggcgtcaactctagctgccagtctcagaagagtgcaccctccaccaacaacaatacctt
cctcaaca

						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: 177
Transcript exons: 812409-812513,812660-812731
CTTCTGCTCATCATTCTCCAGGTTGTCCTTGATGGCGTCAACTCTAGCTGCCAGTCTCAGAAGA
GTGCACCCTCCACCAACAACAATACCTTCCTCAACAGCAGCCTTGGTAGCATTTAGGGCATCCT
CAACTCTCAACTTCTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCCCAC
						
						Genomic sequence
						
							CTTCTGCTCATCATTCTCCAGGTTGTCCTTGATGGCGTCAACTCTAGCTGCCAGTCTCAGAAGA
GTGCACCCTCCACCAACAACAATACCTTCCTCAACAGCAGCCTGACAAAGAGGAAGCGGTTTAA
AGATCCAAAGCCAGAAGAACGTTGATATCAACTCAGTGAGCAACAAACTACCTTAATTTTTCTT
CCTTAAGAAGCAAACATTAATCTATTTCTATCTCAAAGCAGTTATAACAACAGACTAACCTTGG
TAGCATTTAGGGCATCCTCAACTCTCAACTTCTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCC
CAC

Sequences
Splice junction sequence	CTCAAAGCAGTTATAACAACAGACTAACCTTGGTAGCATTTAGGGCATCCTCAACTCTCAACTT CTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCCCACcttctgctcatcattctccaggttgtcc ttgatggcgtcaactctagctgccagtctcagaagagtgcaccctccaccaacaacaatacctt cctcaaca
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: 177 Transcript exons: 812409-812513,812660-812731 CTTCTGCTCATCATTCTCCAGGTTGTCCTTGATGGCGTCAACTCTAGCTGCCAGTCTCAGAAGA GTGCACCCTCCACCAACAACAATACCTTCCTCAACAGCAGCCTTGGTAGCATTTAGGGCATCCT CAACTCTCAACTTCTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCCCAC
Genomic sequence	CTTCTGCTCATCATTCTCCAGGTTGTCCTTGATGGCGTCAACTCTAGCTGCCAGTCTCAGAAGA GTGCACCCTCCACCAACAACAATACCTTCCTCAACAGCAGCCTGACAAAGAGGAAGCGGTTTAA AGATCCAAAGCCAGAAGAACGTTGATATCAACTCAGTGAGCAACAAACTACCTTAATTTTTCTT CCTTAAGAAGCAAACATTAATCTATTTCTATCTCAAAGCAGTTATAACAACAGACTAACCTTGG TAGCATTTAGGGCATCCTCAACTCTCAACTTCTTCTCTTTTAGTTCGGTCTCTGTTTGTGCTCC CAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016927 zma_circ_002921 zma_circ_002229 						
					
						PMCS
						0.421603302

Conservation Information
Conserved circRNAs	osi_circ_016927 zma_circ_002921 zma_circ_002229
PMCS	0.421603302

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							812441-812728(+)
						
						Potential amino acid sequence
						
							MASTLAASLRRVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTL
AASLRRVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTLAASLR
RVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTLAASLRRVHPP
PTTIPSSTAALVAFRASSTLNFFSFSSVSVCAP(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	812441-812728(+)
Potential amino acid sequence	MASTLAASLRRVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTL AASLRRVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTLAASLR RVHPPPTTIPSSTAALVAFRASSTLNFFSFSSVSVCAPTFCSSFSRLSLMASTLAASLRRVHPP PTTIPSSTAALVAFRASSTLNFFSFSSVSVCAP(+)
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 Os06g0114000_circ_g.10

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