Plant Circular RNA Database

Detail information of BGIOSGA036199_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA036199_circ_g.3
					
						ID in PlantcircBase
						osi_circ_003435
					
						Alias
						12:13960535|13961087
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr12: 13960535-13961087  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA036199						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA036199_circ_g.1 BGIOSGA036199_circ_g.2 						
					
						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
						BGIOSGA036199-TA:3

General Information
CircRNA Name	BGIOSGA036199_circ_g.3
ID in PlantcircBase	osi_circ_003435
Alias	12:13960535\|13961087
Organism	Oryza sativa ssp. indica
Position	chr12: 13960535-13961087 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA036199
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA036199_circ_g.1 BGIOSGA036199_circ_g.2
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	BGIOSGA036199-TA: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  
						
							GCCTTCAAATGTCATCTTGAATCTCATCCCTATTGAATGATTTCGTTTCAGAGATTCCTTGTAC
AGATCACGTGGTACCACAAATTCAGATGGACTAGTCcttctttgtttacagcagacaagtcagg
tgaggaagctaaaacatttggacgagcccgcttggttcggggtgctggaagagggttgacaggg
gaagggct

						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
						
							CTTCTTTGTTTACAGCAGACAAGTCAGGTGAGGAAGCTAAAACATTTGGACGAGCCCGCTTGGT
TCGGGGTGCTGGAAGAGGGTTGACAGGGGAAGGGCTGTTAGCAGGTTCTATTTGCCAAGGAGAA
ACCCTATCAGGACGAGGAACAGAAGCAGCTTCATCCCATCGCACCTATTTTCACAAGAACAGCT
TTAGAATAAACTGGTATACTCAATTGATTCCATAAGGTGAGGAATAATACGTAAGGTAAAATAC
CTTAAGGGAACGCCATTTTGAGTCAGCCCAACCAGATGGGTCAGAATCACCTACTCCAACAATT
GTGCCAGTGAATCTAGCAAAAACAAATTAAAGCTTTTATACCATCTCTCCAAGAGGAATTATCT
ATTAGTAAATGTTCCCCATCATTTAAAAGCAGCGACTGTAGCTGCTTACCTTTGCTCTGCAGCC
TCTTCGCCTTCAAATGTCATCTTGAATCTCATCCCTATTGAATGATTTCGTTTCAGAGATTCCT
TGTACAGATCACGTGGTACCACAAATTCAGATGGACTAGTC

Sequences
Splice junction sequence	GCCTTCAAATGTCATCTTGAATCTCATCCCTATTGAATGATTTCGTTTCAGAGATTCCTTGTAC AGATCACGTGGTACCACAAATTCAGATGGACTAGTCcttctttgtttacagcagacaagtcagg tgaggaagctaaaacatttggacgagcccgcttggttcggggtgctggaagagggttgacaggg gaagggct
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	CTTCTTTGTTTACAGCAGACAAGTCAGGTGAGGAAGCTAAAACATTTGGACGAGCCCGCTTGGT TCGGGGTGCTGGAAGAGGGTTGACAGGGGAAGGGCTGTTAGCAGGTTCTATTTGCCAAGGAGAA ACCCTATCAGGACGAGGAACAGAAGCAGCTTCATCCCATCGCACCTATTTTCACAAGAACAGCT TTAGAATAAACTGGTATACTCAATTGATTCCATAAGGTGAGGAATAATACGTAAGGTAAAATAC CTTAAGGGAACGCCATTTTGAGTCAGCCCAACCAGATGGGTCAGAATCACCTACTCCAACAATT GTGCCAGTGAATCTAGCAAAAACAAATTAAAGCTTTTATACCATCTCTCCAAGAGGAATTATCT ATTAGTAAATGTTCCCCATCATTTAAAAGCAGCGACTGTAGCTGCTTACCTTTGCTCTGCAGCC TCTTCGCCTTCAAATGTCATCTTGAATCTCATCCCTATTGAATGATTTCGTTTCAGAGATTCCT TGTACAGATCACGTGGTACCACAAATTCAGATGGACTAGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13961016-13961037(-)
13961025-13961024(+)
						
						Potential amino acid sequence
						
							MRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLKVRWDEAASVPRPDRVSPWQIEPA
NSPSPVNPLPAPRTKRARPNVLASSPDLSAVNKEGLVHLNLWYHVICTRNL*(-)
MISFQRFLVQITWYHKFRWTSPSLFTADKSGEEAKTFGRARLVRGAGRGLTGEGLLAGSICQGE
TLSGRGTEAASSHRTLRERHFESAQPDGSESPTPTIVPVNLCSAASSPSNVILNLIPIE*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13961016-13961037(-) 13961025-13961024(+)
Potential amino acid sequence	MRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLKVRWDEAASVPRPDRVSPWQIEPA NSPSPVNPLPAPRTKRARPNVLASSPDLSAVNKEGLVHLNLWYHVICTRNL(-) MISFQRFLVQITWYHKFRWTSPSLFTADKSGEEAKTFGRARLVRGAGRGLTGEGLLAGSICQGE TLSGRGTEAASSHRTLRERHFESAQPDGSESPTPTIVPVNLCSAASSPSNVILNLIPIE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA036199_circ_g.3

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