Plant Circular RNA Database

Detail information of CH398243.1_circ_ig.4

			
						 General Information
					
						CircRNA Name
						CH398243.1_circ_ig.4
					
						ID in PlantcircBase
						osi_circ_001599
					
						Alias
						NA
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chrCH398243.1: 8401-9223  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						DCC
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							BGIOSGA040488_circ_igg.1 BGIOSGA040488_circ_igg.2 BGIOSGA040488_circ_igg.3 CH398243.1_circ_ig.1 CH398243.1_circ_ig.2 BGIOSGA040488_circ_igg.3 BGIOSGA040488_circ_igg.5 CH398243.1_circ_ig.6 BGIOSGA040488_circ_igg.7 BGIOSGA040488_circ_igg.8 BGIOSGA040488_circ_igg.9 BGIOSGA040488_circ_igg.10 CH398243.1_circ_ig.11 CH398243.1_circ_ig.12 CH398243.1_circ_ig.13 CH398243.1_circ_ig.14 BGIOSGA040488_circ_igg.15 BGIOSGA040488_circ_igg.16 BGIOSGA040488_circ_igg.17 BGIOSGA040488_circ_igg.18 BGIOSGA040488_circ_igg.19 BGIOSGA040488_circ_igg.20 BGIOSGA040488_circ_igg.21 BGIOSGA040488_circ_igg.22 BGIOSGA040488_circ_igg.23 BGIOSGA040488_circ_igg.24 CH398243.1_circ_ig.25 CH398243.1_circ_ig.26 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							NA-NA							"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  
						
							TG-AT							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
						NA

General Information
CircRNA Name	CH398243.1_circ_ig.4
ID in PlantcircBase	osi_circ_001599
Alias	NA
Organism	Oryza sativa ssp. indica
Position	chrCH398243.1: 8401-9223 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	ig-circRNA
Identification method	DCC
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	BGIOSGA040488_circ_igg.1 BGIOSGA040488_circ_igg.2 BGIOSGA040488_circ_igg.3 CH398243.1_circ_ig.1 CH398243.1_circ_ig.2 BGIOSGA040488_circ_igg.3 BGIOSGA040488_circ_igg.5 CH398243.1_circ_ig.6 BGIOSGA040488_circ_igg.7 BGIOSGA040488_circ_igg.8 BGIOSGA040488_circ_igg.9 BGIOSGA040488_circ_igg.10 CH398243.1_circ_ig.11 CH398243.1_circ_ig.12 CH398243.1_circ_ig.13 CH398243.1_circ_ig.14 BGIOSGA040488_circ_igg.15 BGIOSGA040488_circ_igg.16 BGIOSGA040488_circ_igg.17 BGIOSGA040488_circ_igg.18 BGIOSGA040488_circ_igg.19 BGIOSGA040488_circ_igg.20 BGIOSGA040488_circ_igg.21 BGIOSGA040488_circ_igg.22 BGIOSGA040488_circ_igg.23 BGIOSGA040488_circ_igg.24 CH398243.1_circ_ig.25 CH398243.1_circ_ig.26
Support reads	NA
Tissues	leaf
Exon boundary	NA-NA "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	TG-AT 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	NA

			
						 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  
						
							GTCTATGATTCTTTTCTTACCATGAAAAGTATTGCAGCATACACATTTATCATTCATAGCTACG
TCTCAATGTTTACACTTCTGTTCATAATTATTTAGTgtttttgtgcttgctttgtattaccatt
tcattgtccaacgtaactaatgaatacttgagtgttgtgttgcacctgttacattttttgcatc
gttgaaca

						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
						
							GTTTTTGTGCTTGCTTTGTATTACCATTTCATTGTCCAACGTAACTAATGAATACTTGAGTGTT
GTGTTGCACCTGTTACATTTTTTGCATCGTTGAACAGTTTTTACTTATTCCCATACAACTATAC
AAGTAACTAGAATGGAATCAACTTGGTAGATATTTGTGTGCAATCGTTTTACATATGCCTAGTG
TTTGAAAAGCGTGATAAAACACCCTCACCCAAGTTACTCTTGACCCTAACATGAACATTTTGTA
TTGCATTCAGTTGTTGAGCCAATGTAATAATATGTATTTTCGCTCAGTGTTAAGAGCCCAATAT
AACAACATAGATTATTGCTGTAAACCAGGATGAATATGTTTGTCGAAAATGTAACCCGAGTATA
GATATGAGATAAATGAGGTTCTTGATGGCAAGATTGTTCATTCAGTTCAGCATATTCACGTCAT
GTTATGGACATTACTATAAGAGGTTAAAGGGCATTTATATCATATATTCTATAAACTCCACACT
AATTTTCATTAACCTGCCAATTTTTATACCTTATTAGAATAGTCTATTTTTATCACGTCACATC
AATTTAAACTGGTGTAACTATCTTTTAAGTTTGCATTGCTGGTTTTTTAGATAAGCACACTTGC
CTTTTCTAAAAAAGTAAGATTTGATGCTGATACTCTTGTGTTCACAATTTAAATGAGTGCTTGC
TATATATAGGCTTAAGTATGTCTATGATTCTTTTCTTACCATGAAAAGTATTGCAGCATACACA
TTTATCATTCATAGCTACGTCTCAATGTTTACACTTCTGTTCATAATTATTTAGT

Sequences
Splice junction sequence	GTCTATGATTCTTTTCTTACCATGAAAAGTATTGCAGCATACACATTTATCATTCATAGCTACG TCTCAATGTTTACACTTCTGTTCATAATTATTTAGTgtttttgtgcttgctttgtattaccatt tcattgtccaacgtaactaatgaatacttgagtgttgtgttgcacctgttacattttttgcatc gttgaaca
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	GTTTTTGTGCTTGCTTTGTATTACCATTTCATTGTCCAACGTAACTAATGAATACTTGAGTGTT GTGTTGCACCTGTTACATTTTTTGCATCGTTGAACAGTTTTTACTTATTCCCATACAACTATAC AAGTAACTAGAATGGAATCAACTTGGTAGATATTTGTGTGCAATCGTTTTACATATGCCTAGTG TTTGAAAAGCGTGATAAAACACCCTCACCCAAGTTACTCTTGACCCTAACATGAACATTTTGTA TTGCATTCAGTTGTTGAGCCAATGTAATAATATGTATTTTCGCTCAGTGTTAAGAGCCCAATAT AACAACATAGATTATTGCTGTAAACCAGGATGAATATGTTTGTCGAAAATGTAACCCGAGTATA GATATGAGATAAATGAGGTTCTTGATGGCAAGATTGTTCATTCAGTTCAGCATATTCACGTCAT GTTATGGACATTACTATAAGAGGTTAAAGGGCATTTATATCATATATTCTATAAACTCCACACT AATTTTCATTAACCTGCCAATTTTTATACCTTATTAGAATAGTCTATTTTTATCACGTCACATC AATTTAAACTGGTGTAACTATCTTTTAAGTTTGCATTGCTGGTTTTTTAGATAAGCACACTTGC CTTTTCTAAAAAAGTAAGATTTGATGCTGATACTCTTGTGTTCACAATTTAAATGAGTGCTTGC TATATATAGGCTTAAGTATGTCTATGATTCTTTTCTTACCATGAAAAGTATTGCAGCATACACA TTTATCATTCATAGCTACGTCTCAATGTTTACACTTCTGTTCATAATTATTTAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 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
						Guria et al., 2019

circRNA

Detail information of CH398243.1_circ_ig.4

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