Plant Circular RNA Database

Detail information of AT2G37540_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT2G37540_circ_g.3
					
						ID in PlantcircBase
						ath_circ_017096
					
						Alias
						2:15752758-15753847
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 15752758-15753847  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G37540						
					
						Parent gene annotation
						
							NAD(P)-binding Rossmann-fold superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G37540_circ_g.1 AT2G37540_circ_g.2 AT2G37540_circ_g.4 AT2G37540_circ_g.5 AT2G37540_circ_g.6 AT2G37540_circ_g.7 						
					
						Support reads
						1/2/1/1
					
						Tissues
						seedling;leaf;flower
					
						Exon boundary  
						
							Yes-No							"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
						AT2G37540.1:3
AT2G37540.2:3

General Information
CircRNA Name	AT2G37540_circ_g.3
ID in PlantcircBase	ath_circ_017096
Alias	2:15752758-15753847
Organism	Arabidpsis thaliana
Position	chr2: 15752758-15753847 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G37540
Parent gene annotation	NAD(P)-binding Rossmann-fold superfamily protein
Parent gene strand	-
Alternative splicing	AT2G37540_circ_g.1 AT2G37540_circ_g.2 AT2G37540_circ_g.4 AT2G37540_circ_g.5 AT2G37540_circ_g.6 AT2G37540_circ_g.7
Support reads	1/2/1/1
Tissues	seedling;leaf;flower
Exon boundary	Yes-No "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	AT2G37540.1:3 AT2G37540.2:3

			
						 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  
						
							CATCTTCAGCAGTAGAAGCAGATCCAAACCCACTCTTTCCTTTTTTCCCTGTCATCACTCCATA
TATTCCCATGATCTCTCTCTCTCTCTCTCTCTTCCTcaatgtggtttgttgcgaattgtgattc
aatcccatcttcggtgagcttgaaaggacaaaacataacacctgcattgtttctaataacattt
caaagaca

						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
						
							CAATGTGGTTTGTTGCGAATTGTGATTCAATCCCATCTTCGGTGAGCTTGAAAGGACAAAACAT
AACACCTGCATTGTTTCTAATAACATTTCAAAGACACAACAAGTTAACATATAATTAACTCTTA
ATCGCTGCAAAAGAAAAAAGAAAATTCAACAAGTAATATTCAAACGTACATGAGAATGTTGAGA
GGAACATTAAGGGCAAGAAACTGATCAACGAAGGATCTGACTGATTTGATGGAAGAGACATCGA
TCTGGAGATAGTCGACGCGAGCATTAGGGTTCATCTGAAGAATCATCTCTTTAGACTCATTAGC
AGCTTTTGGGTTTCTTGCGGCAATGATGACATGAGCTCCTCTCATTGCTAACACTCTAGCTGCC
TCCAATCCAATCCCACTTGTTCCACCTTTTTGTTTGTTCAAACAATAATTGTTCATAAAATTGC
ATATTGGTCAAAAATTATAGTACCAACTAAATACTACAAAACATATTAGCTTTCAATTTTAATG
AAAATAACTTTGGCAACAACATTCATATGCGAGTTTAATTTTGATCTATTAACTTAGTCTTAAT
TAGAGAGAAGATACATAACTAAGATATTTTGTTTATGGACAAAAAATCGGTCATGACAAAACAG
AAAGAAAATCTTTGGTGTTTGAAATACAAAAAAAAAAAAAAGTCCCCTTTATATTATTTGCCTC
ACAAGTCACAATCGAAACTCTAGCTTAATCCTAAAAGTTTGACTTTTCATCCACCATTAAAACA
TTTCATCTTCCATTCATTGAATTTATAGTAGACTTGACTAATTTTATAGTGTTTTCCGATTCTT
TTTTTGGAAGAAAGTCTTACACGACGAGTAAACGTAAAATAAAATTTGTTTGGCAATAGTAATA
GATTGGGTTTGCAAGAAAATATCAGAAGGAAAAGGAAAAATGAAAGAACCTGTGATGATGGCAG
TGAGATGACTGGCATCAATGGCTTGAGTAACATCTTCAGCAGTAGAAGCAGATCCAAACCCACT
CTTTCCTTTTTTCCCTGTCATCACTCCATATATTCCCATGATCTCTCTCTCTCTCTCTCTCTTC
CT

Sequences
Splice junction sequence	CATCTTCAGCAGTAGAAGCAGATCCAAACCCACTCTTTCCTTTTTTCCCTGTCATCACTCCATA TATTCCCATGATCTCTCTCTCTCTCTCTCTCTTCCTcaatgtggtttgttgcgaattgtgattc aatcccatcttcggtgagcttgaaaggacaaaacataacacctgcattgtttctaataacattt caaagaca
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	CAATGTGGTTTGTTGCGAATTGTGATTCAATCCCATCTTCGGTGAGCTTGAAAGGACAAAACAT AACACCTGCATTGTTTCTAATAACATTTCAAAGACACAACAAGTTAACATATAATTAACTCTTA ATCGCTGCAAAAGAAAAAAGAAAATTCAACAAGTAATATTCAAACGTACATGAGAATGTTGAGA GGAACATTAAGGGCAAGAAACTGATCAACGAAGGATCTGACTGATTTGATGGAAGAGACATCGA TCTGGAGATAGTCGACGCGAGCATTAGGGTTCATCTGAAGAATCATCTCTTTAGACTCATTAGC AGCTTTTGGGTTTCTTGCGGCAATGATGACATGAGCTCCTCTCATTGCTAACACTCTAGCTGCC TCCAATCCAATCCCACTTGTTCCACCTTTTTGTTTGTTCAAACAATAATTGTTCATAAAATTGC ATATTGGTCAAAAATTATAGTACCAACTAAATACTACAAAACATATTAGCTTTCAATTTTAATG AAAATAACTTTGGCAACAACATTCATATGCGAGTTTAATTTTGATCTATTAACTTAGTCTTAAT TAGAGAGAAGATACATAACTAAGATATTTTGTTTATGGACAAAAAATCGGTCATGACAAAACAG AAAGAAAATCTTTGGTGTTTGAAATACAAAAAAAAAAAAAAGTCCCCTTTATATTATTTGCCTC ACAAGTCACAATCGAAACTCTAGCTTAATCCTAAAAGTTTGACTTTTCATCCACCATTAAAACA TTTCATCTTCCATTCATTGAATTTATAGTAGACTTGACTAATTTTATAGTGTTTTCCGATTCTT TTTTTGGAAGAAAGTCTTACACGACGAGTAAACGTAAAATAAAATTTGTTTGGCAATAGTAATA GATTGGGTTTGCAAGAAAATATCAGAAGGAAAAGGAAAAATGAAAGAACCTGTGATGATGGCAG TGAGATGACTGGCATCAATGGCTTGAGTAACATCTTCAGCAGTAGAAGCAGATCCAAACCCACT CTTTCCTTTTTTCCCTGTCATCACTCCATATATTCCCATGATCTCTCTCTCTCTCTCTCTCTTC CT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.332789738

Conservation Information
Conserved circRNAs	NA
PMCS	0.332789738

			
						 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 AT2G37540_circ_g.3

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