Plant Circular RNA Database

Detail information of Os08g0307400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0307400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036649
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 12856350-12856730  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0307400						
					
						Parent gene annotation
						
							Similar to Phosphatidylinositol 3-kinase 1. (Os08t0307400-01);Si
milar to Phosphatidylinositol 3-kinase, root isoform (EC 2.7.1.1
37) (PI3- kinase) (PtdIns-3-kinase) (PI3K) (SPI3K-5). (Os08t0307
400-02);Similar to Phosphatidylinositol 3-kinase 1. (Os08t030740
0-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0307400_circ_g.2 Os08g0307400_circ_g.3 Os08g0307400_circ_g.4 Os08g0307400_circ_g.5 Os08g0307400_circ_g.6 Os08g0307400_circ_g.7 Os08g0307400_circ_g.8 Os08g0307400_circ_g.9 						
					
						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
						Os08t0307400-02:2
Os08t0307400-01:2

General Information
CircRNA Name	Os08g0307400_circ_g.1
ID in PlantcircBase	osa_circ_036649
Alias	NA
Organism	Oryza sativa
Position	chr8: 12856350-12856730 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0307400
Parent gene annotation	Similar to Phosphatidylinositol 3-kinase 1. (Os08t0307400-01);Si milar to Phosphatidylinositol 3-kinase, root isoform (EC 2.7.1.1 37) (PI3- kinase) (PtdIns-3-kinase) (PI3K) (SPI3K-5). (Os08t0307 400-02);Similar to Phosphatidylinositol 3-kinase 1. (Os08t030740 0-03)
Parent gene strand	-
Alternative splicing	Os08g0307400_circ_g.2 Os08g0307400_circ_g.3 Os08g0307400_circ_g.4 Os08g0307400_circ_g.5 Os08g0307400_circ_g.6 Os08g0307400_circ_g.7 Os08g0307400_circ_g.8 Os08g0307400_circ_g.9
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	Os08t0307400-02:2 Os08t0307400-01:2

			
						 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  
						
							TGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCATATACGAGAAGTCAACATGGAAAAGT
CTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGCcttagaagtccctttgtctgtgatactc
tcaatatttgatccagtcatcagataaaaaagattcagtatgaggttgctggactttcgtaata
tgttgtat

						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: 292
Transcript exons: 12856350-12856488,12856578-12856730
CTTAGAAGTCCCTTTGTCTGTGATACTCTCAATATTTGATCCAGTCATCAGATAAAAAAGATTC
AGTATGAGGTTGCTGGACTTTCGTAATATGTTGTATGCCTCGCAACAGTAGGACTTGAATCTTG
CATAGTATTCACTTTCAGTACCACCCATGGCCTCAACCATTTCTTTGCATAATTTCATCGGTGG
TGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCATATACGAGAAGTCAACATGGAAAAGT
CTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGC
						
						Genomic sequence
						
							CTTAGAAGTCCCTTTGTCTGTGATACTCTCAATATTTGATCCAGTCATCAGATAAAAAAGATTC
AGTATGAGGTTGCTGGACTTTCGTAATATGTTGTATGCCTCGCAACAGTAGGACTTGAATCTTG
CATAGTATTCACTAAAATGGAAGTCACATGCAAAGAATAAATATCTGTGAAATGAGCAAAGGTG
CAAAACTATATATACATAACTAAATAAAGCATTTACCTTTCAGTACCACCCATGGCCTCAACCA
TTTCTTTGCATAATTTCATCGGTGGTGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCAT
ATACGAGAAGTCAACATGGAAAAGTCTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGC

Sequences
Splice junction sequence	TGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCATATACGAGAAGTCAACATGGAAAAGT CTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGCcttagaagtccctttgtctgtgatactc tcaatatttgatccagtcatcagataaaaaagattcagtatgaggttgctggactttcgtaata tgttgtat
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: 292 Transcript exons: 12856350-12856488,12856578-12856730 CTTAGAAGTCCCTTTGTCTGTGATACTCTCAATATTTGATCCAGTCATCAGATAAAAAAGATTC AGTATGAGGTTGCTGGACTTTCGTAATATGTTGTATGCCTCGCAACAGTAGGACTTGAATCTTG CATAGTATTCACTTTCAGTACCACCCATGGCCTCAACCATTTCTTTGCATAATTTCATCGGTGG TGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCATATACGAGAAGTCAACATGGAAAAGT CTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGC
Genomic sequence	CTTAGAAGTCCCTTTGTCTGTGATACTCTCAATATTTGATCCAGTCATCAGATAAAAAAGATTC AGTATGAGGTTGCTGGACTTTCGTAATATGTTGTATGCCTCGCAACAGTAGGACTTGAATCTTG CATAGTATTCACTAAAATGGAAGTCACATGCAAAGAATAAATATCTGTGAAATGAGCAAAGGTG CAAAACTATATATACATAACTAAATAAAGCATTTACCTTTCAGTACCACCCATGGCCTCAACCA TTTCTTTGCATAATTTCATCGGTGGTGATGGTGGTGCAAATCGATGTGGTTGTTCCCCAAGCAT ATACGAGAAGTCAACATGGAAAAGTCTTCCATCGTCTTGTAGGAGAAGGTTGTCAAGATGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.354946409

Conservation Information
Conserved circRNAs	NA
PMCS	0.354946409

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12856594-12856385(+)
12856634-12856401(+)
12856671-12856724(-)
						
						Potential amino acid sequence
						
							MASTISLHNFIGGDGGANRCGCSPSIYEKSTWKSLPSSCRRRLSRCLRSPFVCDTLNI*(+)
MVVQIDVVVPQAYTRSQHGKVFHRLVGEGCQDALEVPLSVILSIFDPVIR*(+)
MLGEQPHRFAPPSPPMKLCKEMVEAMGGTESEYYARFKSYCCEAYNILRKSSNLILNLFYLMTG
SNIESITDKGTSKAS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12856594-12856385(+) 12856634-12856401(+) 12856671-12856724(-)
Potential amino acid sequence	MASTISLHNFIGGDGGANRCGCSPSIYEKSTWKSLPSSCRRRLSRCLRSPFVCDTLNI(+) MVVQIDVVVPQAYTRSQHGKVFHRLVGEGCQDALEVPLSVILSIFDPVIR(+) MLGEQPHRFAPPSPPMKLCKEMVEAMGGTESEYYARFKSYCCEAYNILRKSSNLILNLFYLMTG SNIESITDKGTSKAS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0307400_circ_g.1

Address

Any questions?

Supported by