Plant Circular RNA Database

Detail information of AT1G78915_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT1G78915_circ_g.6
					
						ID in PlantcircBase
						ath_circ_010874
					
						Alias
						1:29669100-29671098
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 29669100-29671098  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G78915						
					
						Parent gene annotation
						
							Tetratricopeptide repeat (TPR)-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G78915_circ_g.1 AT1G78915_circ_g.2 AT1G78915_circ_g.3 AT1G78915_circ_g.4 AT1G78915_circ_g.5 						
					
						Support reads
						1/1
					
						Tissues
						root;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
						AT1G78915.3:10
AT1G78915.1:9
AT1G78915.2:10

General Information
CircRNA Name	AT1G78915_circ_g.6
ID in PlantcircBase	ath_circ_010874
Alias	1:29669100-29671098
Organism	Arabidpsis thaliana
Position	chr1: 29669100-29671098 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G78915
Parent gene annotation	Tetratricopeptide repeat (TPR)-like superfamily protein
Parent gene strand	-
Alternative splicing	AT1G78915_circ_g.1 AT1G78915_circ_g.2 AT1G78915_circ_g.3 AT1G78915_circ_g.4 AT1G78915_circ_g.5
Support reads	1/1
Tissues	root;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	AT1G78915.3:10 AT1G78915.1:9 AT1G78915.2:10

			
						 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  
						
							TTAGAATCCGAGCAACGTATTCGAAATAGGAGAAGCTTCGAGTTAAATGAAACGGAGGTCGTCG
CCGCTAGTGTCATCAACATCCTCTGTTTGTATTGTCcttagcgagtttctcaagaaacgcagca
gcccgtgaataatctcctagttcagtcagtgtcacagctgcaccctgcatagtgccccaacttt
aagaattt

									
								

					

						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
						
							CTTAGCGAGTTTCTCAAGAAACGCAGCAGCCCGTGAATAATCTCCTAGTTCAGTCAGTGTCACA
GCTGCACCCTGCATAGTGCCCCAACTTTAAGAATTTTTTTAGCATTATAAATAAGTCAGAAGAG
GTAGCCTATCTTGTTTTCAGCATACTATGTGTACATTACTAACTTCGGTGAATCAGTTAATGCA
AACAGAAAAGTTCCATGCAATTTAAGATGTGGAGGTAAGAACTGTTACATACTACCTGATTATT
AGTTTAAGTTGTTCCTTGTTACTATTGGAAGCCTACAGATGAATGGCTAAATGCCGATGAAGAA
GATATTTAATAGTATGCACAACATGCGCATGTTATCACTCACCTCCAGAGCAGCTTGATCCTGA
GGCGTGCCATTGAGAGTTGTTTCAAACTCTTTGAGCCTTTGCTGCAAAATGAAAAAAAATCGAG
ATGTTTACTACGTATCTTACTTTATTCAGATTATCAAAGTTCATGAACGAAATCTTCATGATCA
GCCCCTAATATTACCTGAAGCGTGGCTTTCTCTTCTTCTGAAATTTGATTTTTAACTACTGTTG
TGTTCTTAGTTGGACTATCACTGAAAAGTGGTAAAAACATTGTTAGAACTGACACCGGCTAAAT
TACATGACAACATGACTTGGTATGACAAAAATGTGAAATTACGGAAACCAACCCAGCTGATCCT
AAGAACATATGATGTCATCAGAATCTTTACACAAACAATTACAAACTGGAATAAAAAGAAGGAA
AATGACAAACAGTAACATGGTGTAAATGACACAGTTATGACTTGGACTTCACTTAACGCACCTT
CCCGTGGGAAGAAAGTCACCAAGAGCAAAAACCAAACCAAATACAACAACAGCTATGCCAACTC
CAACCTGTCATGGCATGGGCCCAAGTTTTGTCATGTTATGTATGAGTAGCTTATAGGCCTCAAG
TGGTTTTAGAACAAAATAAAAAATAAACACTTGCAAGATGTTATGTATGCGTACCTTAGTACCA
AGACCAATTGTTTTCTGGTCAGACTTGACTGGTGCATCATAGTCAATTGGACCAAATTCTTTAA
CTACTTCTGTCTTTTTCTGCTCAAGAGCTGACCTGATTCATCAAAAGAGCAGAGGTCACAGAAA
TAACATTCCGATCAGTGGGAGGACAATGATCTTGACTATGTCTAGGGGGTGAGGGAAGTGGAAA
GCAAGACAAGTGATGAACAAATCAAGAAAAAAAAAGAATCAAACTTTCATAGGAAGATCATGTC
GTTGTGGGTATAATGAGAAAGTCAAGTGTGATTGTCAGAGGAATAATCCTATTGTAACCTATAT
ATCTCTAAAGCCAATCTTCATGCTAGAATCATAAAACATAGGTACCTTCTGATGTTTTCCAGCC
GTTCATCGAAGTCTATATCAAAAGATCGACCAGATTTTCCTTCAAACTGAGTATTCAGACCAGG
TGCCTCTGCAAACAAATGCAGGAGTTTCTTGAGCAAACCTTTCAATTGAAACCAACTTTTTGAG
ATAAACTGAAGAATGCAAAAATGAAGTTATGTTCGAGACACCATGAAGGAGAGCAGCAACATCT
GTTACGTACAATATGCTTTAAAATCAAATTATACTTACTTCTGGGTACAGAAACAGACTGTTTA
GAAGATGATTTCCTGCAGCAAAGAAGTCCATATGAAAATATAACAACAGCAATTTAAAATTCTA
AATGCTTTAAACAAACACAAAAACTATTTATACCTTTGCTGCAATGCCGGGTCTTTCTCTTCCT
GTGATGCGATTTCACATTTTTGTCTCAGTACTTTGAATCAACAAAATTAAGTTGAACAAAGAAG
AATTTGGAATCAAACCTTTTTTGAGCCGAAGCCACGCTTAGGGTTAGAATCCGAGCAACGTATT
CGAAATAGGAGAAGCTTCGAGTTAAATGAAACGGAGGTCGTCGCCGCTAGTGTCATCAACATCC
TCTGTTTGTATTGTC
						
					

			
		

Sequences
Splice junction sequence	TTAGAATCCGAGCAACGTATTCGAAATAGGAGAAGCTTCGAGTTAAATGAAACGGAGGTCGTCG CCGCTAGTGTCATCAACATCCTCTGTTTGTATTGTCcttagcgagtttctcaagaaacgcagca gcccgtgaataatctcctagttcagtcagtgtcacagctgcaccctgcatagtgccccaacttt aagaattt
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	CTTAGCGAGTTTCTCAAGAAACGCAGCAGCCCGTGAATAATCTCCTAGTTCAGTCAGTGTCACA GCTGCACCCTGCATAGTGCCCCAACTTTAAGAATTTTTTTAGCATTATAAATAAGTCAGAAGAG GTAGCCTATCTTGTTTTCAGCATACTATGTGTACATTACTAACTTCGGTGAATCAGTTAATGCA AACAGAAAAGTTCCATGCAATTTAAGATGTGGAGGTAAGAACTGTTACATACTACCTGATTATT AGTTTAAGTTGTTCCTTGTTACTATTGGAAGCCTACAGATGAATGGCTAAATGCCGATGAAGAA GATATTTAATAGTATGCACAACATGCGCATGTTATCACTCACCTCCAGAGCAGCTTGATCCTGA GGCGTGCCATTGAGAGTTGTTTCAAACTCTTTGAGCCTTTGCTGCAAAATGAAAAAAAATCGAG ATGTTTACTACGTATCTTACTTTATTCAGATTATCAAAGTTCATGAACGAAATCTTCATGATCA GCCCCTAATATTACCTGAAGCGTGGCTTTCTCTTCTTCTGAAATTTGATTTTTAACTACTGTTG TGTTCTTAGTTGGACTATCACTGAAAAGTGGTAAAAACATTGTTAGAACTGACACCGGCTAAAT TACATGACAACATGACTTGGTATGACAAAAATGTGAAATTACGGAAACCAACCCAGCTGATCCT AAGAACATATGATGTCATCAGAATCTTTACACAAACAATTACAAACTGGAATAAAAAGAAGGAA AATGACAAACAGTAACATGGTGTAAATGACACAGTTATGACTTGGACTTCACTTAACGCACCTT CCCGTGGGAAGAAAGTCACCAAGAGCAAAAACCAAACCAAATACAACAACAGCTATGCCAACTC CAACCTGTCATGGCATGGGCCCAAGTTTTGTCATGTTATGTATGAGTAGCTTATAGGCCTCAAG TGGTTTTAGAACAAAATAAAAAATAAACACTTGCAAGATGTTATGTATGCGTACCTTAGTACCA AGACCAATTGTTTTCTGGTCAGACTTGACTGGTGCATCATAGTCAATTGGACCAAATTCTTTAA CTACTTCTGTCTTTTTCTGCTCAAGAGCTGACCTGATTCATCAAAAGAGCAGAGGTCACAGAAA TAACATTCCGATCAGTGGGAGGACAATGATCTTGACTATGTCTAGGGGGTGAGGGAAGTGGAAA GCAAGACAAGTGATGAACAAATCAAGAAAAAAAAAGAATCAAACTTTCATAGGAAGATCATGTC GTTGTGGGTATAATGAGAAAGTCAAGTGTGATTGTCAGAGGAATAATCCTATTGTAACCTATAT ATCTCTAAAGCCAATCTTCATGCTAGAATCATAAAACATAGGTACCTTCTGATGTTTTCCAGCC GTTCATCGAAGTCTATATCAAAAGATCGACCAGATTTTCCTTCAAACTGAGTATTCAGACCAGG TGCCTCTGCAAACAAATGCAGGAGTTTCTTGAGCAAACCTTTCAATTGAAACCAACTTTTTGAG ATAAACTGAAGAATGCAAAAATGAAGTTATGTTCGAGACACCATGAAGGAGAGCAGCAACATCT GTTACGTACAATATGCTTTAAAATCAAATTATACTTACTTCTGGGTACAGAAACAGACTGTTTA GAAGATGATTTCCTGCAGCAAAGAAGTCCATATGAAAATATAACAACAGCAATTTAAAATTCTA AATGCTTTAAACAAACACAAAAACTATTTATACCTTTGCTGCAATGCCGGGTCTTTCTCTTCCT GTGATGCGATTTCACATTTTTGTCTCAGTACTTTGAATCAACAAAATTAAGTTGAACAAAGAAG AATTTGGAATCAAACCTTTTTTGAGCCGAAGCCACGCTTAGGGTTAGAATCCGAGCAACGTATT CGAAATAGGAGAAGCTTCGAGTTAAATGAAACGGAGGTCGTCGCCGCTAGTGTCATCAACATCC TCTGTTTGTATTGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.107000245

Conservation Information
Conserved circRNAs	NA
PMCS	0.107000245

			
						 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 AT1G78915_circ_g.6

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