Plant Circular RNA Database

Detail information of AT1G35510_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G35510_circ_g.2
					
						ID in PlantcircBase
						ath_circ_005729
					
						Alias
						1:13072917-13073679
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 13072917-13073679  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G35510						
					
						Parent gene annotation
						
							O-fucosyltransferase 9
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.1 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.1 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.3 						
					
						Support reads
						1
					
						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
						AT1G35510.1:3

General Information
CircRNA Name	AT1G35510_circ_g.2
ID in PlantcircBase	ath_circ_005729
Alias	1:13072917-13073679
Organism	Arabidpsis thaliana
Position	chr1: 13072917-13073679 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G35510
Parent gene annotation	O-fucosyltransferase 9
Parent gene strand	+
Alternative splicing	1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.1 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.1 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.3
Support reads	1
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	AT1G35510.1:3

			
						 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  
						
							TTACAAAGCTGACAAATATATGGCTCCTCTAAGGCAGATGTTTCCTCTTCTCCAAACCAAGGAT
ACTCTAGCTACTCCAGAGGAGCTTGCTCCGTTTAAGggctgtccgtgttgcaccattttccaat
aggttagctcatgcagttcctgcacacattcaagggctcagatgcttagcaaactttgaagcat
tgagattt

						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: 541
Transcript exons: 13072917-13073121,13073208-13073375,13073512-13073679
GGCTGTCCGTGTTGCACCATTTTCCAATAGGTTAGCTCATGCAGTTCCTGCACACATTCAAGGG
CTCAGATGCTTAGCAAACTTTGAAGCATTGAGATTTGCAGAACCCATACGGCTTCTTGCAGAGA
AAATGGTCGATAGGATGGTTACAAAGAGTGTTGAGAGTGGAGGAAAATATGTTTCTGTTCATCT
CCGCTTTGAAATGGACATGGTCGCCTTTTCGTGTTGCGAGTATGATTTTGGGCAGGCGGAGAAG
CTAGAAATGGACATGGCCCGGGAAAGAGGGTGGAAAGGAAAGTTCAGGAGGAGAGGCAGAGTAA
TTAGGCCTGGTGCAAACCGCATAGATGGGAAATGCCCTTTAACCCCACTGGAGGTCGGAATGAT
GCTTAGGGGCATGGGATTTAACAATAGCACCTTGGTTTACGTAGCTGCGGGAAACATTTACAAA
GCTGACAAATATATGGCTCCTCTAAGGCAGATGTTTCCTCTTCTCCAAACCAAGGATACTCTAG
CTACTCCAGAGGAGCTTGCTCCGTTTAAG
						
						Genomic sequence
						
							GGCTGTCCGTGTTGCACCATTTTCCAATAGGTTAGCTCATGCAGTTCCTGCACACATTCAAGGG
CTCAGATGCTTAGCAAACTTTGAAGCATTGAGATTTGCAGAACCCATACGGCTTCTTGCAGAGA
AAATGGTCGATAGGATGGTTACAAAGAGTGTTGAGAGTGGAGGAAAATATGTTTCTGTTCATCT
CCGCTTTGAAATGGTTTATAATTCCTGCCAATTTCTCCATTTCTGCAATTCCTTATTTGTAGTA
CCCTCTTATAATCTCTATTTACTTTACTTTTAAAGGACATGGTCGCCTTTTCGTGTTGCGAGTA
TGATTTTGGGCAGGCGGAGAAGCTAGAAATGGACATGGCCCGGGAAAGAGGGTGGAAAGGAAAG
TTCAGGAGGAGAGGCAGAGTAATTAGGCCTGGTGCAAACCGCATAGATGGGAAATGCCCTTTAA
CCCCACTGGAGGTATCACTGAAAAACTACCTCGCCTCTCCAAGATTTCTGAAAATCATAAATTC
AGTTTATCTAGTGACTATCACAATTCACTTTACGGATATAAGACATTATGGAAGTGATACATTT
TGGTAACATCACTCTGTAGGTCGGAATGATGCTTAGGGGCATGGGATTTAACAATAGCACCTTG
GTTTACGTAGCTGCGGGAAACATTTACAAAGCTGACAAATATATGGCTCCTCTAAGGCAGATGT
TTCCTCTTCTCCAAACCAAGGATACTCTAGCTACTCCAGAGGAGCTTGCTCCGTTTAAG

Sequences
Splice junction sequence	TTACAAAGCTGACAAATATATGGCTCCTCTAAGGCAGATGTTTCCTCTTCTCCAAACCAAGGAT ACTCTAGCTACTCCAGAGGAGCTTGCTCCGTTTAAGggctgtccgtgttgcaccattttccaat aggttagctcatgcagttcctgcacacattcaagggctcagatgcttagcaaactttgaagcat tgagattt
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: 541 Transcript exons: 13072917-13073121,13073208-13073375,13073512-13073679 GGCTGTCCGTGTTGCACCATTTTCCAATAGGTTAGCTCATGCAGTTCCTGCACACATTCAAGGG CTCAGATGCTTAGCAAACTTTGAAGCATTGAGATTTGCAGAACCCATACGGCTTCTTGCAGAGA AAATGGTCGATAGGATGGTTACAAAGAGTGTTGAGAGTGGAGGAAAATATGTTTCTGTTCATCT CCGCTTTGAAATGGACATGGTCGCCTTTTCGTGTTGCGAGTATGATTTTGGGCAGGCGGAGAAG CTAGAAATGGACATGGCCCGGGAAAGAGGGTGGAAAGGAAAGTTCAGGAGGAGAGGCAGAGTAA TTAGGCCTGGTGCAAACCGCATAGATGGGAAATGCCCTTTAACCCCACTGGAGGTCGGAATGAT GCTTAGGGGCATGGGATTTAACAATAGCACCTTGGTTTACGTAGCTGCGGGAAACATTTACAAA GCTGACAAATATATGGCTCCTCTAAGGCAGATGTTTCCTCTTCTCCAAACCAAGGATACTCTAG CTACTCCAGAGGAGCTTGCTCCGTTTAAG
Genomic sequence	GGCTGTCCGTGTTGCACCATTTTCCAATAGGTTAGCTCATGCAGTTCCTGCACACATTCAAGGG CTCAGATGCTTAGCAAACTTTGAAGCATTGAGATTTGCAGAACCCATACGGCTTCTTGCAGAGA AAATGGTCGATAGGATGGTTACAAAGAGTGTTGAGAGTGGAGGAAAATATGTTTCTGTTCATCT CCGCTTTGAAATGGTTTATAATTCCTGCCAATTTCTCCATTTCTGCAATTCCTTATTTGTAGTA CCCTCTTATAATCTCTATTTACTTTACTTTTAAAGGACATGGTCGCCTTTTCGTGTTGCGAGTA TGATTTTGGGCAGGCGGAGAAGCTAGAAATGGACATGGCCCGGGAAAGAGGGTGGAAAGGAAAG TTCAGGAGGAGAGGCAGAGTAATTAGGCCTGGTGCAAACCGCATAGATGGGAAATGCCCTTTAA CCCCACTGGAGGTATCACTGAAAAACTACCTCGCCTCTCCAAGATTTCTGAAAATCATAAATTC AGTTTATCTAGTGACTATCACAATTCACTTTACGGATATAAGACATTATGGAAGTGATACATTT TGGTAACATCACTCTGTAGGTCGGAATGATGCTTAGGGGCATGGGATTTAACAATAGCACCTTG GTTTACGTAGCTGCGGGAAACATTTACAAAGCTGACAAATATATGGCTCCTCTAAGGCAGATGT TTCCTCTTCTCCAAACCAAGGATACTCTAGCTACTCCAGAGGAGCTTGCTCCGTTTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.242454461

Conservation Information
Conserved circRNAs	NA
PMCS	0.242454461

			
						 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 AT1G35510_circ_g.2

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