Plant Circular RNA Database

Detail information of 4_circ_ag.9

			
						 General Information
					
						CircRNA Name
						4_circ_ag.9
					
						ID in PlantcircBase
						ath_circ_031044
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 8678608-8686381  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 AT4G15230_circ_g.1 AT4G15230_circ_g.2 AT4G15230_circ_g.3 						
					
						Support reads
						12
					
						Tissues
						root
					
						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  
						
							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
						NA

General Information
CircRNA Name	4_circ_ag.9
ID in PlantcircBase	ath_circ_031044
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 8678608-8686381 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 AT4G15230_circ_g.1 AT4G15230_circ_g.2 AT4G15230_circ_g.3
Support reads	12
Tissues	root
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	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	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  
						
							TATGGTTGCTTTGACGCCAAACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATG
TTAAATCTGTTTGCTGGCTTTGTCATTCCAAAACAGaaaatcccaaaatggtggatatggatgt
actacctgagccctacatcgtgggtgttggaaggattactgagttcgcagtatggagatgtcga
gaaagaga

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 401
Transcript exons: 8678608-8678629,8684408-8684528,8684611-8684659,8686173-
8686381
AAAATCCCAAAATGGTGGATATCGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCCT
AATATAACTGTGGAAGAGTCTTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGATT
CAAAGACAAAGAACGGAACTCGTCAAAGAAGTCCTCGAGACAGTTGAGCTTGATGACATCAAAG
CGATAATTGTATATCCTACGATCGGCTACCATATGTCCGTTTACAAGATGTTTTGGAGCTTGTA
CAGCATCTTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTATGGTTGCTTTGACGCCA
AACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTAAATCTGTTTGCTGGCT
TTGTCATTCCAAAACAG
Transcript length: 586
Transcript exons: 8678608-8678630,8681318-8681477,8681568-8681602,8684304-
8684528,8686239-8686381
AAAATCCCAAAATGGTGGATATGGTTGGAGGAGAAGTATGTTACAATGGTTGCTCACTCTCAGA
GTTTATTCCGGAGAAAACGTCGAGTTATATAAGTCAAAACGATCTGCATATTCCTGAGCTGAGT
GTAAGAGAGACACTTGACTTCTCTGCGTGTTGTCAGGGCATCGGAAGCCGTATGGGAAATTATG
AAAGAGATCAGTAGAATGGAAAAACTGGAAAACGACTCTTCTTGATGTCCTTTCGGGAAGAAAA
ACTCGCGGTATCATCAAAGGAGAGATCAAAGTAGGCGGGTATCCTAAGGTTCAAGAAACATTTG
CACGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCCTAATATAACTGTGGAAGAGTC
TTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGATTCAAAGACAAAGAACGGCATC
TTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTATGGTTGCTTTGACGCCAAACATTC
ACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTAAATCTGTTTGCTGGCTTTGTCAT
TCCAAAACAG
Transcript length: 609
Transcript exons: 8678608-8678629,8681316-8681477,8684313-8684528,8686173-
8686381
AAAATCCCAAAATGGTGGATATAGGTTGGAGGAGAAGTATGTTACAATGGTTGCTCACTCTCAG
AGTTTATTCCGGAGAAAACGTCGAGTTATATAAGTCAAAACGATCTGCATATTCCTGAGCTGAG
TGTAAGAGAGACACTTGACTTCTCTGCGTGTTGTCAGGGCATCGGAAGCCGTATGGCTCTTCTT
GATGTCCTTTCGGGAAGAAAAACTCGCGGTATCATCAAAGGAGAGATCAAAGTAGGCGGGTATC
CTAAGGTTCAAGAAACATTTGCACGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCC
TAATATAACTGTGGAAGAGTCTTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGAT
TCAAAGACAAAGAACGCGATAATTGTATATCCTACGATCGGCTACCATATGTCCGTTTACAAGA
TGTTTTGGAGCTTGTACAGCATCTTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTAT
GGTTGCTTTGACGCCAAACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTA
AATCTGTTTGCTGGCTTTGTCATTCCAAAACAG
						
					

						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	TATGGTTGCTTTGACGCCAAACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATG TTAAATCTGTTTGCTGGCTTTGTCATTCCAAAACAGaaaatcccaaaatggtggatatggatgt actacctgagccctacatcgtgggtgttggaaggattactgagttcgcagtatggagatgtcga gaaagaga
Assembled circRNA sequence	Yes 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	Transcript length: 401 Transcript exons: 8678608-8678629,8684408-8684528,8684611-8684659,8686173- 8686381 AAAATCCCAAAATGGTGGATATCGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCCT AATATAACTGTGGAAGAGTCTTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGATT CAAAGACAAAGAACGGAACTCGTCAAAGAAGTCCTCGAGACAGTTGAGCTTGATGACATCAAAG CGATAATTGTATATCCTACGATCGGCTACCATATGTCCGTTTACAAGATGTTTTGGAGCTTGTA CAGCATCTTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTATGGTTGCTTTGACGCCA AACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTAAATCTGTTTGCTGGCT TTGTCATTCCAAAACAG Transcript length: 586 Transcript exons: 8678608-8678630,8681318-8681477,8681568-8681602,8684304- 8684528,8686239-8686381 AAAATCCCAAAATGGTGGATATGGTTGGAGGAGAAGTATGTTACAATGGTTGCTCACTCTCAGA GTTTATTCCGGAGAAAACGTCGAGTTATATAAGTCAAAACGATCTGCATATTCCTGAGCTGAGT GTAAGAGAGACACTTGACTTCTCTGCGTGTTGTCAGGGCATCGGAAGCCGTATGGGAAATTATG AAAGAGATCAGTAGAATGGAAAAACTGGAAAACGACTCTTCTTGATGTCCTTTCGGGAAGAAAA ACTCGCGGTATCATCAAAGGAGAGATCAAAGTAGGCGGGTATCCTAAGGTTCAAGAAACATTTG CACGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCCTAATATAACTGTGGAAGAGTC TTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGATTCAAAGACAAAGAACGGCATC TTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTATGGTTGCTTTGACGCCAAACATTC ACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTAAATCTGTTTGCTGGCTTTGTCAT TCCAAAACAG Transcript length: 609 Transcript exons: 8678608-8678629,8681316-8681477,8684313-8684528,8686173- 8686381 AAAATCCCAAAATGGTGGATATAGGTTGGAGGAGAAGTATGTTACAATGGTTGCTCACTCTCAG AGTTTATTCCGGAGAAAACGTCGAGTTATATAAGTCAAAACGATCTGCATATTCCTGAGCTGAG TGTAAGAGAGACACTTGACTTCTCTGCGTGTTGTCAGGGCATCGGAAGCCGTATGGCTCTTCTT GATGTCCTTTCGGGAAGAAAAACTCGCGGTATCATCAAAGGAGAGATCAAAGTAGGCGGGTATC CTAAGGTTCAAGAAACATTTGCACGAGTATCAGGTTACTGTGAACAGTTTGATATTCATTCTCC TAATATAACTGTGGAAGAGTCTTTGAAATATTCTGCATGGCTTCGACTCCCCTATAACATAGAT TCAAAGACAAAGAACGCGATAATTGTATATCCTACGATCGGCTACCATATGTCCGTTTACAAGA TGTTTTGGAGCTTGTACAGCATCTTCTGCTCGTTACTCATCTTCAACTACAGTGGGATGCTTAT GGTTGCTTTGACGCCAAACATTCACATGGCAGTGACTCTACGCTCATCTTTTTTCTCCATGTTA AATCTGTTTGCTGGCTTTGTCATTCCAAAACAG
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
						0.55848241

Conservation Information
Conserved circRNAs	NA
PMCS	0.55848241

			
						 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
						Chu et al., 2017

circRNA

Detail information of 4_circ_ag.9

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