Plant Circular RNA Database

Detail information of AT5G06780_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G06780_circ_g.1
					
						ID in PlantcircBase
						ath_circ_036773
					
						Alias
						5:2095023-2096410
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 2095023-2096410  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G06780						
					
						Parent gene annotation
						
							Emsy N Terminus (ENT)/ plant Tudor-like domains-containing prote
in
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						Tissues
						root;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  
						
							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
						AT5G06780.2:5
AT5G06780.1:5

General Information
CircRNA Name	AT5G06780_circ_g.1
ID in PlantcircBase	ath_circ_036773
Alias	5:2095023-2096410
Organism	Arabidpsis thaliana
Position	chr5: 2095023-2096410 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G06780
Parent gene annotation	Emsy N Terminus (ENT)/ plant Tudor-like domains-containing prote in
Parent gene strand	-
Alternative splicing	NA
Support reads	2/1
Tissues	root;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	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	AT5G06780.2:5 AT5G06780.1:5

			
						 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  
						
							CAGCAGAATAAGCTTCCTGCTCAAGTATATGAATCTGCGCTTCCATATTAATGTGTAGACCTAC
CATATACTTTCCATCCAAATGAAACCAACCCTTCTTctcattaagatcaacccattcccatgtc
tcattcactgtgtttatatcatataccaacgcatgtcgaccctgcgagagaacaatgaatgcat
caattaca

									
								

					

						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: 588
Transcript exons: 2095023-2095091,2095618-2095776,2095889-2095997,2096092-
2096201,2096270-2096410
CTCATTAAGATCAACCCATTCCCATGTCTCATTCACTGTGTTTATATCATATACCAACGCATGT
CGACCCTCATTTGCATTGTATTGTGTAACTACTGCTTCATAAAAGCTGTTGTCTTCAGGCCATT
TTGTCCACACTTTTCTTCCAATAAGAGCTTCCGCAGGTTCATTTGCTGATACTACACGGTTATT
GAATGACTTACTTCTAGTAGAACCAATCGACGGATAGGATTGGAACGTCTTCTGTTTCTTCCGA
GAAGCTGAAAAAGTCGGACTAGGATGAACATCGAGGGACTGATGTCTAACAACCTGGTTTCCAC
CTCTTGGTCTCGAATCTCTTATTCTTTTGATAAGATCATCATTATGGACATTGTTCAACAGTTG
TCGGTTTTCATCATCAGATATCCTCAATTCTTTACGTAGGTTTGTCATCACGGTTGCTTTATCC
CAAGAAAATTCATCAGCCTGTGCTTGAAAAGCTCTTAATACAGCAGAATAAGCTTCCTGCTCAA
GTATATGAATCTGCGCTTCCATATTAATGTGTAGACCTACCATATACTTTCCATCCAAATGAAA
CCAACCCTTCTT
						
					

						Genomic sequence
						
							CTCATTAAGATCAACCCATTCCCATGTCTCATTCACTGTGTTTATATCATATACCAACGCATGT
CGACCCTGCGAGAGAACAATGAATGCATCAATTACAATATACTTAAGCTATGTTCAACGCTAAA
TACAGTTCCAAACTTCTAGATATATCAAAGTCATAGTATACTTTTCAACGCCTCATATGCACAT
TAACAGTAAACACCTCCTTTCTTCAATTCATCAAGAACTACACTATAGAGAGACTTGATTAACT
AGAGAAGTCTTTCGACAAATGCCTAAACCATGATCCTAGACTAATCCAGAGTACCCCGGCTCAT
TCTGCCTAAACTTCCTTTTTAACTAGTGAGCTATCTAGCTAAGCGATTCGACTAGTTGCTTAGC
TTTCTACACAGTTACAATCAACCTAAAGTAATTGCAATGCTCACTCACTAGAGTAACTCTGAAC
TATACGGTAAATTTCGATCAGGCTTTGAGGCCTTGGAGTCAGATATTCGAAGTACAGGAGACAC
CTCGACACACAAACATATATAATGCTGAACATATGAATTTCTGATTCAATCTCAATAAAAAGGT
CTCAGCCATCAGAAGTTACCTCATTTGCATTGTATTGTGTAACTACTGCTTCATAAAAGCTGTT
GTCTTCAGGCCATTTTGTCCACACTTTTCTTCCAATAAGAGCTTCCGCAGGTTCATTTGCTGAT
ACTACACGGTTATTGAATGACTTACTTCTAGTAGAACCAATCGACGGATACTGCATGTGTATCA
CAAATGATATGATCAGTAAATAAACAGAAAACCATATGCAAATACAGATATCCTCTGCTTGTTG
TTCTATGACCAAAGATTAAAACAAGAAGTCTTACGGATTGGAACGTCTTCTGTTTCTTCCGAGA
AGCTGAAAAAGTCGGACTAGGATGAACATCGAGGGACTGATGTCTAACAACCTGGTTTCCACCT
CTTGGTCTCGAATCTCTGTTGGTCCAGTTCCATCATACAACACATTATTACAAGATACAACGAA
ATCTAGATTCATAGCTTTACTATCACAAATGATCAGACTCGTTACCTTATTCTTTTGATAAGAT
CATCATTATGGACATTGTTCAACAGTTGTCGGTTTTCATCATCAGATATCCTCAATTCTTTACG
TAGGTTTGTCATCACGGTTGCTTTATCCTATAAAATGAAACCATATAAGCCAAATCCTTTGTCT
TTTGATGGCAAAAGGAAGAAAGAGGACTTACCCAAGAAAATTCATCAGCCTGTGCTTGAAAAGC
TCTTAATACAGCAGAATAAGCTTCCTGCTCAAGTATATGAATCTGCGCTTCCATATTAATGTGT
AGACCTACCATATACTTTCCATCCAAATGAAACCAACCCTTCTT
						
					

			
		

Sequences
Splice junction sequence	CAGCAGAATAAGCTTCCTGCTCAAGTATATGAATCTGCGCTTCCATATTAATGTGTAGACCTAC CATATACTTTCCATCCAAATGAAACCAACCCTTCTTctcattaagatcaacccattcccatgtc tcattcactgtgtttatatcatataccaacgcatgtcgaccctgcgagagaacaatgaatgcat caattaca
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: 588 Transcript exons: 2095023-2095091,2095618-2095776,2095889-2095997,2096092- 2096201,2096270-2096410 CTCATTAAGATCAACCCATTCCCATGTCTCATTCACTGTGTTTATATCATATACCAACGCATGT CGACCCTCATTTGCATTGTATTGTGTAACTACTGCTTCATAAAAGCTGTTGTCTTCAGGCCATT TTGTCCACACTTTTCTTCCAATAAGAGCTTCCGCAGGTTCATTTGCTGATACTACACGGTTATT GAATGACTTACTTCTAGTAGAACCAATCGACGGATAGGATTGGAACGTCTTCTGTTTCTTCCGA GAAGCTGAAAAAGTCGGACTAGGATGAACATCGAGGGACTGATGTCTAACAACCTGGTTTCCAC CTCTTGGTCTCGAATCTCTTATTCTTTTGATAAGATCATCATTATGGACATTGTTCAACAGTTG TCGGTTTTCATCATCAGATATCCTCAATTCTTTACGTAGGTTTGTCATCACGGTTGCTTTATCC CAAGAAAATTCATCAGCCTGTGCTTGAAAAGCTCTTAATACAGCAGAATAAGCTTCCTGCTCAA GTATATGAATCTGCGCTTCCATATTAATGTGTAGACCTACCATATACTTTCCATCCAAATGAAA CCAACCCTTCTT
Genomic sequence	CTCATTAAGATCAACCCATTCCCATGTCTCATTCACTGTGTTTATATCATATACCAACGCATGT CGACCCTGCGAGAGAACAATGAATGCATCAATTACAATATACTTAAGCTATGTTCAACGCTAAA TACAGTTCCAAACTTCTAGATATATCAAAGTCATAGTATACTTTTCAACGCCTCATATGCACAT TAACAGTAAACACCTCCTTTCTTCAATTCATCAAGAACTACACTATAGAGAGACTTGATTAACT AGAGAAGTCTTTCGACAAATGCCTAAACCATGATCCTAGACTAATCCAGAGTACCCCGGCTCAT TCTGCCTAAACTTCCTTTTTAACTAGTGAGCTATCTAGCTAAGCGATTCGACTAGTTGCTTAGC TTTCTACACAGTTACAATCAACCTAAAGTAATTGCAATGCTCACTCACTAGAGTAACTCTGAAC TATACGGTAAATTTCGATCAGGCTTTGAGGCCTTGGAGTCAGATATTCGAAGTACAGGAGACAC CTCGACACACAAACATATATAATGCTGAACATATGAATTTCTGATTCAATCTCAATAAAAAGGT CTCAGCCATCAGAAGTTACCTCATTTGCATTGTATTGTGTAACTACTGCTTCATAAAAGCTGTT GTCTTCAGGCCATTTTGTCCACACTTTTCTTCCAATAAGAGCTTCCGCAGGTTCATTTGCTGAT ACTACACGGTTATTGAATGACTTACTTCTAGTAGAACCAATCGACGGATACTGCATGTGTATCA CAAATGATATGATCAGTAAATAAACAGAAAACCATATGCAAATACAGATATCCTCTGCTTGTTG TTCTATGACCAAAGATTAAAACAAGAAGTCTTACGGATTGGAACGTCTTCTGTTTCTTCCGAGA AGCTGAAAAAGTCGGACTAGGATGAACATCGAGGGACTGATGTCTAACAACCTGGTTTCCACCT CTTGGTCTCGAATCTCTGTTGGTCCAGTTCCATCATACAACACATTATTACAAGATACAACGAA ATCTAGATTCATAGCTTTACTATCACAAATGATCAGACTCGTTACCTTATTCTTTTGATAAGAT CATCATTATGGACATTGTTCAACAGTTGTCGGTTTTCATCATCAGATATCCTCAATTCTTTACG TAGGTTTGTCATCACGGTTGCTTTATCCTATAAAATGAAACCATATAAGCCAAATCCTTTGTCT TTTGATGGCAAAAGGAAGAAAGAGGACTTACCCAAGAAAATTCATCAGCCTGTGCTTGAAAAGC TCTTAATACAGCAGAATAAGCTTCCTGCTCAAGTATATGAATCTGCGCTTCCATATTAATGTGT AGACCTACCATATACTTTCCATCCAAATGAAACCAACCCTTCTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227765829

Conservation Information
Conserved circRNAs	NA
PMCS	0.227765829

			
						 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 AT5G06780_circ_g.1

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