Plant Circular RNA Database

Detail information of AT5G61740_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G61740_circ_g.4
					
						ID in PlantcircBase
						ath_circ_045241
					
						Alias
						5:24809048-24810039
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24809048-24810039  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G61740						
					
						Parent gene annotation
						
							ABC transporter A family member 10
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G61740_circ_g.1 AT5G61740_circ_g.2 AT5G61740_circ_g.3 						
					
						Support reads
						3/1
					
						Tissues
						flower
					
						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
						AT5G61740.2:5
AT5G61740.1:5
AT5G61740.3:5

General Information
CircRNA Name	AT5G61740_circ_g.4
ID in PlantcircBase	ath_circ_045241
Alias	5:24809048-24810039
Organism	Arabidpsis thaliana
Position	chr5: 24809048-24810039 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G61740
Parent gene annotation	ABC transporter A family member 10
Parent gene strand	+
Alternative splicing	AT5G61740_circ_g.1 AT5G61740_circ_g.2 AT5G61740_circ_g.3
Support reads	3/1
Tissues	flower
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	AT5G61740.2:5 AT5G61740.1:5 AT5G61740.3:5

			
						 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  
						
							TGTCAAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCG
CTTTTTTTCACTTGGGTTGTTCTTCTTCTATTCCCCctttatctgggaatatgtttggtggttc
gtttgctgtgaattcctctgacctcttgtctagtttagcctataatgtcttggtacgttttgat
atttcttt

									
								

					

						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: 611
Transcript exons: 24809048-24809127,24809225-24809357,24809469-24809588,24
809672-24809790,24809881-24810039
CTTTATCTGGGAATATGTTTGGTGGTTCGTTTGCTGTGAATTCCTCTGACCTCTTGTCTAGTTT
AGCCTATAATGTCTTGGGTTCAACACTAGCACTAGGCACAAACAATTATGCAGATCCCGGGATT
GAGTCGGATTTTCCTATCTACAGTATCCAATCTCAGTGCAGTCCAAACTCTACATGGCCACTCT
CATTTGGAAAAATTCATACAGCGGTGACGTGTCTTCAAGGGTTGTCTCTATGGAGAAATAACTC
TGTAGAGGTCAATGATGAGCTTTTCAAGGGTAATTGGAAGGGAAATCCTGAGAGGATGACAAAT
GAGATTGCTGCAGCATATGATCTCTTGAATACGGATAGAAACAACTTCGATGTGACGATCTGGT
ATAACTCAACAAACATTGATGACCCTTCAAGGGCACCTTTGGTTCGAGTTCCTCGCTTGCTCAA
TCTGGTATCAAATGCTTATCTTAAGTTTCTTAAAGGCCCCGGGACGAGGATATTATTCGAGTTT
GTCAAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCGC
TTTTTTTCACTTGGGTTGTTCTTCTTCTATTCCCC
						
					

						Genomic sequence
						
							CTTTATCTGGGAATATGTTTGGTGGTTCGTTTGCTGTGAATTCCTCTGACCTCTTGTCTAGTTT
AGCCTATAATGTCTTGGTACGTTTTGATATTTCTTTCAATCAAGCAAGTGCAAACATTTATCTC
TCTGTTTTAGATTTTTAACTAGAGGTCATGTGCATGTGAGTGACTTCAGGGTTCAACACTAGCA
CTAGGCACAAACAATTATGCAGATCCCGGGATTGAGTCGGATTTTCCTATCTACAGTATCCAAT
CTCAGTGCAGTCCAAACTCTACATGGCCACTCTCATTTGGAAAAATTCATACAGGTAGTTTTTT
TTTTTTATGTTCAAAGCTTGAGATGATAAAATGAACAGTGAAAAATGTGGTTTTCTTCACTTTG
ATGATCAACTTAGTGGTTGTGTCTAATATTATCTCAGCGGTGACGTGTCTTCAAGGGTTGTCTC
TATGGAGAAATAACTCTGTAGAGGTCAATGATGAGCTTTTCAAGGGTAATTGGAAGGGAAATCC
TGAGAGGATGACAAATGAGATTGCTGCAGGTTTGTTTCATTTTCTTCTATATACATATGCTTAA
GAATCAAGCTGTGATTTCTTACTGTTGATGTATTTTTGTTGTCTTTAGCATATGATCTCTTGAA
TACGGATAGAAACAACTTCGATGTGACGATCTGGTATAACTCAACAAACATTGATGACCCTTCA
AGGGCACCTTTGGTTCGAGTTCCTCGCTTGCTCAATCTGGTATGAATCTAAGTCACGCTGTAGT
ACTCTTTTACATGTTTCTGTTATTGAACGGATCCAATTAATGTTCACACCGTGCAAAACTTGCA
GGTATCAAATGCTTATCTTAAGTTTCTTAAAGGCCCCGGGACGAGGATATTATTCGAGTTTGTC
AAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCGCTTT
TTTTCACTTGGGTTGTTCTTCTTCTATTCCCC
						
					

			
		

Sequences
Splice junction sequence	TGTCAAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCG CTTTTTTTCACTTGGGTTGTTCTTCTTCTATTCCCCctttatctgggaatatgtttggtggttc gtttgctgtgaattcctctgacctcttgtctagtttagcctataatgtcttggtacgttttgat atttcttt
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: 611 Transcript exons: 24809048-24809127,24809225-24809357,24809469-24809588,24 809672-24809790,24809881-24810039 CTTTATCTGGGAATATGTTTGGTGGTTCGTTTGCTGTGAATTCCTCTGACCTCTTGTCTAGTTT AGCCTATAATGTCTTGGGTTCAACACTAGCACTAGGCACAAACAATTATGCAGATCCCGGGATT GAGTCGGATTTTCCTATCTACAGTATCCAATCTCAGTGCAGTCCAAACTCTACATGGCCACTCT CATTTGGAAAAATTCATACAGCGGTGACGTGTCTTCAAGGGTTGTCTCTATGGAGAAATAACTC TGTAGAGGTCAATGATGAGCTTTTCAAGGGTAATTGGAAGGGAAATCCTGAGAGGATGACAAAT GAGATTGCTGCAGCATATGATCTCTTGAATACGGATAGAAACAACTTCGATGTGACGATCTGGT ATAACTCAACAAACATTGATGACCCTTCAAGGGCACCTTTGGTTCGAGTTCCTCGCTTGCTCAA TCTGGTATCAAATGCTTATCTTAAGTTTCTTAAAGGCCCCGGGACGAGGATATTATTCGAGTTT GTCAAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCGC TTTTTTTCACTTGGGTTGTTCTTCTTCTATTCCCC
Genomic sequence	CTTTATCTGGGAATATGTTTGGTGGTTCGTTTGCTGTGAATTCCTCTGACCTCTTGTCTAGTTT AGCCTATAATGTCTTGGTACGTTTTGATATTTCTTTCAATCAAGCAAGTGCAAACATTTATCTC TCTGTTTTAGATTTTTAACTAGAGGTCATGTGCATGTGAGTGACTTCAGGGTTCAACACTAGCA CTAGGCACAAACAATTATGCAGATCCCGGGATTGAGTCGGATTTTCCTATCTACAGTATCCAAT CTCAGTGCAGTCCAAACTCTACATGGCCACTCTCATTTGGAAAAATTCATACAGGTAGTTTTTT TTTTTTATGTTCAAAGCTTGAGATGATAAAATGAACAGTGAAAAATGTGGTTTTCTTCACTTTG ATGATCAACTTAGTGGTTGTGTCTAATATTATCTCAGCGGTGACGTGTCTTCAAGGGTTGTCTC TATGGAGAAATAACTCTGTAGAGGTCAATGATGAGCTTTTCAAGGGTAATTGGAAGGGAAATCC TGAGAGGATGACAAATGAGATTGCTGCAGGTTTGTTTCATTTTCTTCTATATACATATGCTTAA GAATCAAGCTGTGATTTCTTACTGTTGATGTATTTTTGTTGTCTTTAGCATATGATCTCTTGAA TACGGATAGAAACAACTTCGATGTGACGATCTGGTATAACTCAACAAACATTGATGACCCTTCA AGGGCACCTTTGGTTCGAGTTCCTCGCTTGCTCAATCTGGTATGAATCTAAGTCACGCTGTAGT ACTCTTTTACATGTTTCTGTTATTGAACGGATCCAATTAATGTTCACACCGTGCAAAACTTGCA GGTATCAAATGCTTATCTTAAGTTTCTTAAAGGCCCCGGGACGAGGATATTATTCGAGTTTGTC AAAGAAGTTCCTAAACACCAAACTAAATTCAATCTTGATATCGCTTCCATGCTAGGCCCGCTTT TTTTCACTTGGGTTGTTCTTCTTCTATTCCCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.203074934

Conservation Information
Conserved circRNAs	NA
PMCS	0.203074934

			
						 Functional Information
					
						Coding potential
						NA
					
						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	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G61740_circ_g.4

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