Plant Circular RNA Database

Detail information of Gh_A04G1093_circ_g.2

			
						 General Information
					
						CircRNA Name
						Gh_A04G1093_circ_g.2
					
						ID in PlantcircBase
						ghi_circ_000456
					
						Alias
						ghi_circ_000088_byXiang
					
						Organism
						
							Gossypium hirsutum						
					
						Position
						
							chrA04: 61017164-61047197  JBrowse»						
					
						Reference genome
						
							v1.1						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Gh_A04G1093						
					
						Parent gene annotation
						
							SIMILAR TO: AT1G58440, FAD/NAD(P)-binding oxidoreductase family 
protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Gh_A04G1093_circ_g.1 A04_circ_ag.3 A04_circ_ag.4 A04_circ_ag.5 A04_circ_ag.6 A04_circ_igg.7 A04_circ_ag.8 						
					
						Support reads
						29
					
						Tissues
						stem
					
						Exon boundary  
						
							No-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  
						
							GT-AG							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
						Gh_A04G1093:4

General Information
CircRNA Name	Gh_A04G1093_circ_g.2
ID in PlantcircBase	ghi_circ_000456
Alias	ghi_circ_000088_byXiang
Organism	Gossypium hirsutum
Position	chrA04: 61017164-61047197 JBrowse»
Reference genome	v1.1
Type	ei-circRNA
Identification method	find_circ
Parent gene	Gh_A04G1093
Parent gene annotation	SIMILAR TO: AT1G58440, FAD/NAD(P)-binding oxidoreductase family protein
Parent gene strand	+
Alternative splicing	Gh_A04G1093_circ_g.1 A04_circ_ag.3 A04_circ_ag.4 A04_circ_ag.5 A04_circ_ag.6 A04_circ_igg.7 A04_circ_ag.8
Support reads	29
Tissues	stem
Exon boundary	No-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	GT-AG 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	Gh_A04G1093:4

			
						 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  
						
							TGATGTTGTGATACTTAGGGATCTTCTAAGACCCTTGCATGATCTATCTGATGCATCCGCCATT
TGCAAATATCTCGAATCCTTTTATACTCTGAGGAAGccaatgtcttctacgataaatactttgg
ctaacgtcgtacagaaggcattcagtgcctcatccgatcctgcaatggataatattcagcaaac
attgttcg

						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	TGATGTTGTGATACTTAGGGATCTTCTAAGACCCTTGCATGATCTATCTGATGCATCCGCCATT TGCAAATATCTCGAATCCTTTTATACTCTGAGGAAGccaatgtcttctacgataaatactttgg ctaacgtcgtacagaaggcattcagtgcctcatccgatcctgcaatggataatattcagcaaac attgttcg
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
						
							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
						Xiang et al., 2018

circRNA

Detail information of Gh_A04G1093_circ_g.2

Address

Any questions?

Supported by