Plant Circular RNA Database

Detail information of BGIOSGA036341_circ_g.4

			
						 General Information
					
						CircRNA Name
						BGIOSGA036341_circ_g.4
					
						ID in PlantcircBase
						osi_circ_003398
					
						Alias
						12:9052222|9059495
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr12: 9052222-9059495  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA036341						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA036341_circ_g.1 BGIOSGA036341_circ_g.2 BGIOSGA036341_circ_g.3 BGIOSGA036341_circ_g.5 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA036341-TA:6

General Information
CircRNA Name	BGIOSGA036341_circ_g.4
ID in PlantcircBase	osi_circ_003398
Alias	12:9052222\|9059495
Organism	Oryza sativa ssp. indica
Position	chr12: 9052222-9059495 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA036341
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA036341_circ_g.1 BGIOSGA036341_circ_g.2 BGIOSGA036341_circ_g.3 BGIOSGA036341_circ_g.5
Support reads	NA
Tissues	leaf
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	BGIOSGA036341-TA:6

			
						 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  
						
							AATTACCTGACTTCACTCTCACAAAGTTCTTTGGCACGTGTATATAAAGCACGAAGCCGAATCA
ACGTAGCATCAACCTGTTTATCAACCATCTCTGGAGcttacgattagaggcaacagtagctcta
tatagtgctgttgtgctaggataaacagctaagacttgtcgaccctgcccaaaatctggggcac
tggaagga

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	AATTACCTGACTTCACTCTCACAAAGTTCTTTGGCACGTGTATATAAAGCACGAAGCCGAATCA ACGTAGCATCAACCTGTTTATCAACCATCTCTGGAGcttacgattagaggcaacagtagctcta tatagtgctgttgtgctaggataaacagctaagacttgtcgaccctgcccaaaatctggggcac tggaagga
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9059489-9059459(-)
						
						Potential amino acid sequence
						
							MVDKQVDATLIRLRALYTRAKELCESEVSASSALVGLLDGLLQSGTSAAQRKKIEVGEQKKKRM
KSDTDTTRFSSASMRSQLDQATNLKGEQVAAKVKSDEEKDEWFVVKVIHFDKETKEYEVLDEEP
GDDEESAQKKYKLPMSDIIPFPKRGDPSSAPDFGQGRQVLAVYPSTTALYRATVASNRKLQRWL
INRLMLR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9059489-9059459(-)
Potential amino acid sequence	MVDKQVDATLIRLRALYTRAKELCESEVSASSALVGLLDGLLQSGTSAAQRKKIEVGEQKKKRM KSDTDTTRFSSASMRSQLDQATNLKGEQVAAKVKSDEEKDEWFVVKVIHFDKETKEYEVLDEEP GDDEESAQKKYKLPMSDIIPFPKRGDPSSAPDFGQGRQVLAVYPSTTALYRATVASNRKLQRWL INRLMLR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA036341_circ_g.4

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