Plant Circular RNA Database

Detail information of Gh_A05G2112_circ_g.9

			
						 General Information
					
						CircRNA Name
						Gh_A05G2112_circ_g.9
					
						ID in PlantcircBase
						ghi_circ_000546
					
						Alias
						ghi_circ_000097_byXiang
					
						Organism
						
							Gossypium hirsutum						
					
						Position
						
							chrA05: 23947676-24019595  JBrowse»						
					
						Reference genome
						
							v1.1						
					
						Type  
						
							i-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Gh_A05G2112						
					
						Parent gene annotation
						
							SIMILAR TO: AT5G09360, laccase 14
							
						Parent gene strand
						-
					
						Alternative splicing
						
							A05_circ_ag.6 A05_circ_ag.7 A05_circ_ag.8 Gh_A05G2112_circ_g.1 Gh_A05G2112_circ_g.2 Gh_A05G2112_circ_g.3 Gh_A05G2112_circ_g.4 A05_circ_ag.5 A05_circ_ag.6 A05_circ_ag.7 A05_circ_ag.8 						
					
						Support reads
						35/20
					
						Tissues
						root/stem
					
						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  
						
							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
						0

General Information
CircRNA Name	Gh_A05G2112_circ_g.9
ID in PlantcircBase	ghi_circ_000546
Alias	ghi_circ_000097_byXiang
Organism	Gossypium hirsutum
Position	chrA05: 23947676-24019595 JBrowse»
Reference genome	v1.1
Type	i-circRNA
Identification method	find_circ
Parent gene	Gh_A05G2112
Parent gene annotation	SIMILAR TO: AT5G09360, laccase 14
Parent gene strand	-
Alternative splicing	A05_circ_ag.6 A05_circ_ag.7 A05_circ_ag.8 Gh_A05G2112_circ_g.1 Gh_A05G2112_circ_g.2 Gh_A05G2112_circ_g.3 Gh_A05G2112_circ_g.4 A05_circ_ag.5 A05_circ_ag.6 A05_circ_ag.7 A05_circ_ag.8
Support reads	35/20
Tissues	root/stem
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	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	0

			
						 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  
						
							CCATATGTTTCTCCGGGATGACCATTGATAGTGTAAGCATCTGCTGAGCCAGGAGCAATGGTTT
GATTAGCTTCCGTTAACTCTTCCCTGAACCATTCCCcaagtataattgtttgatcagaagtagg
tgcagggaaaggatagtcttcattggctactggcaaaatgacaaaggcaccgtgggcagttgca
gcagccca

						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	CCATATGTTTCTCCGGGATGACCATTGATAGTGTAAGCATCTGCTGAGCCAGGAGCAATGGTTT GATTAGCTTCCGTTAACTCTTCCCTGAACCATTCCCcaagtataattgtttgatcagaagtagg tgcagggaaaggatagtcttcattggctactggcaaaatgacaaaggcaccgtgggcagttgca gcagccca
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
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ghr-miR7505 						
					
						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	ghr-miR7505
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Xiang et al., 2018

circRNA

Detail information of Gh_A05G2112_circ_g.9

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