Plant Circular RNA Database

Detail information of AT3G19960_circ_g.14

			
						 General Information
					
						CircRNA Name
						AT3G19960_circ_g.14
					
						ID in PlantcircBase
						ath_circ_022846
					
						Alias
						3:6954171-6955781
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6954171-6955781  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G19960						
					
						Parent gene annotation
						
							Myosin 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G19960_circ_g.12 AT3G19960_circ_g.13 AT3G19960_circ_g.15 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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
						AT3G19960.4:6
AT3G19960.3:5
AT3G19960.5:6
AT3G19960.2:7
AT3G19960.1:6

General Information
CircRNA Name	AT3G19960_circ_g.14
ID in PlantcircBase	ath_circ_022846
Alias	3:6954171-6955781
Organism	Arabidpsis thaliana
Position	chr3: 6954171-6955781 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G19960
Parent gene annotation	Myosin 1
Parent gene strand	+
Alternative splicing	AT3G19960_circ_g.12 AT3G19960_circ_g.13 AT3G19960_circ_g.15
Support reads	2
Tissues	seedling
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	AT3G19960.4:6 AT3G19960.3:5 AT3G19960.5:6 AT3G19960.2:7 AT3G19960.1:6

			
						 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  
						
							AGGCATAAGGCTGCTGCTACTATACAGAGCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATA
AGGGCATAGCCGATGCATCAGTTGTGATACAATCAGaaaccattggggctgctctcccttttgg
atgaggaatctacatttccgaatggcacagatttgacacttgcaaacaagctaaaacagcatct
acagtcta

									
								

					

						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: 904
Transcript exons: 6954171-6954329,6954452-6954658,6954887-6955033,6955119-
6955152,6955236-6955315,6955393-6955522,6955635-6955781
AAACCATTGGGGCTGCTCTCCCTTTTGGATGAGGAATCTACATTTCCGAATGGCACAGATTTGA
CACTTGCAAACAAGCTAAAACAGCATCTACAGTCTAATTCATGTTTCAGAGGAGATAAAGGGAA
GCTTTTCACAGTTGTGCATTATGCAGGAGAGGTTACATATGAGACGACTGGATTTCTAGAGAAG
AATAGAGACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTC
AAGCATTTGCTTCTAGCATGCTGATCCAATCTGAAAAACCCGTTGTGGGTCCTTTATACAAAGC
AGGTGGTGCTGATTCCCAGCGTTTGAGTGTAGCTACTAAATTTAAGAGTCAACTCTTCCAATTG
ATGCAACGTTTAGGAAACACTACCCCACATTTCATTCGCTGTATCAAGCCAAATAACATCCAGT
CTCCCGGGGTGTATGAGCAAGGGCTTGTTTTACAGCAGCTAAGATGTTGTGGGGTCCTAGAAGT
GTTGTGCAAGGGACCGTACAAGCGTTTCTTCATAATTGCGATTCTCCATCAGTTTAATATCTTG
CCGGAGATGTATCAAGTTGGCTACACAAAGTTGTTTTTCAGAACTGGCCAGATTGGGGTTCTTG
AGGACACAAGGAACCGTACTCTCCACGGCATTTTACGTGTTCAAAGTTCTTTTAGAGGATACCA
AGCACGCTGTCTCCTGAAGGAACTTAAAAGGGGAATTTCTATTCTCCAATCATTTGTTCGTGGA
GAGAAGATAAGAAAAGAGTTTGCTGAGTTACGAAGGAGGCATAAGGCTGCTGCTACTATACAGA
GCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATAAGGGCATAGCCGATGCATCAGTTGTGAT
ACAATCAG
						
					

						Genomic sequence
						
							AAACCATTGGGGCTGCTCTCCCTTTTGGATGAGGAATCTACATTTCCGAATGGCACAGATTTGA
CACTTGCAAACAAGCTAAAACAGCATCTACAGTCTAATTCATGTTTCAGAGGAGATAAAGGGAA
GCTTTTCACAGTTGTGCATTATGCAGGAGAGGTAACAGCTCTTGAACTCTCTGTGACACAAACA
CAGTTTTGCGTTATTCAAAAACAGGAACCTAGTCTCGGTCTGAATGCTTCTTGACAGCTTGCTT
TTTTTCACTTGCTTCTCCGAATCAGGTTACATATGAGACGACTGGATTTCTAGAGAAGAATAGA
GACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTCAAGCAT
TTGCTTCTAGCATGCTGATCCAATCTGAAAAACCCGTTGTGGGTCCTTTATACAAAGCAGGTGG
TGCTGATTCCCAGCGTTTGAGTGTAGCTACTAAATTTAAGGTGAGTGTTTGGCCTTAAACTCAA
ACCTGATGTTTGGCTACCTTACTTTAAAGCTCATAACTTGCATACATGTGATAACAAGTATTCT
GCTTTAAATTGTTCAAAGCTTGTTGTGGTTTGTGTCAAGATTACCAAATTTTGCCATGCTTACG
CTATGAAAGAAAAAGCCAATATATCATCCTCTATGATATTTGATTATTAATGACCTTACCTGGA
TTTTTTTTCCAGAGTCAACTCTTCCAATTGATGCAACGTTTAGGAAACACTACCCCACATTTCA
TTCGCTGTATCAAGCCAAATAACATCCAGTCTCCCGGGGTGTATGAGCAAGGGCTTGTTTTACA
GCAGCTAAGATGTTGTGGGGTCCTAGAAGTGGTTCGAATTTCACGGTCTGGATTTCCTACAAGA
ATGTCTCATCAGAAATTTTCCCGAAGGTGACAATGCCATTCATCATTAGTAGTTGTGCAAGGGA
CCGTACAAGCGTTTCTTCATAAGTTTTAATCACATTGATCATATTGCAGATATGGTTTTCTTCT
GGTGGAGAACATTGCTGATAGAGATCCTCTAAGTGTTTCAGTTGCGATTCTCCATCAGTTTAAT
ATCTTGCCGGAGATGTATCAAGTTGGCTACACAAAGTTGTTTTTCAGAACTGGCCAGGTATAAT
AGCTTGTCGGCTGGTGTCAAAGACTTTTATTTTATAAGGGGCAGGAATAAGAGTCTCATGTGCA
TTGCAGATTGGGGTTCTTGAGGACACAAGGAACCGTACTCTCCACGGCATTTTACGTGTTCAAA
GTTCTTTTAGAGGATACCAAGCACGCTGTCTCCTGAAGGAACTTAAAAGGGGAATTTCTATTCT
CCAATCATGTATAACACTTTTGTCTCAAGTCATTACCCTGGTTTTGCATCTTAATCTCATTGTA
ATGGAGATACTTTGAGCTTACCTGAGATATGGCTCGTCCCACCTCTTTTTCTTCAGTTGTTCGT
GGAGAGAAGATAAGAAAAGAGTTTGCTGAGTTACGAAGGAGGCATAAGGCTGCTGCTACTATAC
AGAGCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATAAGGGCATAGCCGATGCATCAGTTGT
GATACAATCAG
						
					

			
		

Sequences
Splice junction sequence	AGGCATAAGGCTGCTGCTACTATACAGAGCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATA AGGGCATAGCCGATGCATCAGTTGTGATACAATCAGaaaccattggggctgctctcccttttgg atgaggaatctacatttccgaatggcacagatttgacacttgcaaacaagctaaaacagcatct acagtcta
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: 904 Transcript exons: 6954171-6954329,6954452-6954658,6954887-6955033,6955119- 6955152,6955236-6955315,6955393-6955522,6955635-6955781 AAACCATTGGGGCTGCTCTCCCTTTTGGATGAGGAATCTACATTTCCGAATGGCACAGATTTGA CACTTGCAAACAAGCTAAAACAGCATCTACAGTCTAATTCATGTTTCAGAGGAGATAAAGGGAA GCTTTTCACAGTTGTGCATTATGCAGGAGAGGTTACATATGAGACGACTGGATTTCTAGAGAAG AATAGAGACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTC AAGCATTTGCTTCTAGCATGCTGATCCAATCTGAAAAACCCGTTGTGGGTCCTTTATACAAAGC AGGTGGTGCTGATTCCCAGCGTTTGAGTGTAGCTACTAAATTTAAGAGTCAACTCTTCCAATTG ATGCAACGTTTAGGAAACACTACCCCACATTTCATTCGCTGTATCAAGCCAAATAACATCCAGT CTCCCGGGGTGTATGAGCAAGGGCTTGTTTTACAGCAGCTAAGATGTTGTGGGGTCCTAGAAGT GTTGTGCAAGGGACCGTACAAGCGTTTCTTCATAATTGCGATTCTCCATCAGTTTAATATCTTG CCGGAGATGTATCAAGTTGGCTACACAAAGTTGTTTTTCAGAACTGGCCAGATTGGGGTTCTTG AGGACACAAGGAACCGTACTCTCCACGGCATTTTACGTGTTCAAAGTTCTTTTAGAGGATACCA AGCACGCTGTCTCCTGAAGGAACTTAAAAGGGGAATTTCTATTCTCCAATCATTTGTTCGTGGA GAGAAGATAAGAAAAGAGTTTGCTGAGTTACGAAGGAGGCATAAGGCTGCTGCTACTATACAGA GCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATAAGGGCATAGCCGATGCATCAGTTGTGAT ACAATCAG
Genomic sequence	AAACCATTGGGGCTGCTCTCCCTTTTGGATGAGGAATCTACATTTCCGAATGGCACAGATTTGA CACTTGCAAACAAGCTAAAACAGCATCTACAGTCTAATTCATGTTTCAGAGGAGATAAAGGGAA GCTTTTCACAGTTGTGCATTATGCAGGAGAGGTAACAGCTCTTGAACTCTCTGTGACACAAACA CAGTTTTGCGTTATTCAAAAACAGGAACCTAGTCTCGGTCTGAATGCTTCTTGACAGCTTGCTT TTTTTCACTTGCTTCTCCGAATCAGGTTACATATGAGACGACTGGATTTCTAGAGAAGAATAGA GACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTCAAGCAT TTGCTTCTAGCATGCTGATCCAATCTGAAAAACCCGTTGTGGGTCCTTTATACAAAGCAGGTGG TGCTGATTCCCAGCGTTTGAGTGTAGCTACTAAATTTAAGGTGAGTGTTTGGCCTTAAACTCAA ACCTGATGTTTGGCTACCTTACTTTAAAGCTCATAACTTGCATACATGTGATAACAAGTATTCT GCTTTAAATTGTTCAAAGCTTGTTGTGGTTTGTGTCAAGATTACCAAATTTTGCCATGCTTACG CTATGAAAGAAAAAGCCAATATATCATCCTCTATGATATTTGATTATTAATGACCTTACCTGGA TTTTTTTTCCAGAGTCAACTCTTCCAATTGATGCAACGTTTAGGAAACACTACCCCACATTTCA TTCGCTGTATCAAGCCAAATAACATCCAGTCTCCCGGGGTGTATGAGCAAGGGCTTGTTTTACA GCAGCTAAGATGTTGTGGGGTCCTAGAAGTGGTTCGAATTTCACGGTCTGGATTTCCTACAAGA ATGTCTCATCAGAAATTTTCCCGAAGGTGACAATGCCATTCATCATTAGTAGTTGTGCAAGGGA CCGTACAAGCGTTTCTTCATAAGTTTTAATCACATTGATCATATTGCAGATATGGTTTTCTTCT GGTGGAGAACATTGCTGATAGAGATCCTCTAAGTGTTTCAGTTGCGATTCTCCATCAGTTTAAT ATCTTGCCGGAGATGTATCAAGTTGGCTACACAAAGTTGTTTTTCAGAACTGGCCAGGTATAAT AGCTTGTCGGCTGGTGTCAAAGACTTTTATTTTATAAGGGGCAGGAATAAGAGTCTCATGTGCA TTGCAGATTGGGGTTCTTGAGGACACAAGGAACCGTACTCTCCACGGCATTTTACGTGTTCAAA GTTCTTTTAGAGGATACCAAGCACGCTGTCTCCTGAAGGAACTTAAAAGGGGAATTTCTATTCT CCAATCATGTATAACACTTTTGTCTCAAGTCATTACCCTGGTTTTGCATCTTAATCTCATTGTA ATGGAGATACTTTGAGCTTACCTGAGATATGGCTCGTCCCACCTCTTTTTCTTCAGTTGTTCGT GGAGAGAAGATAAGAAAAGAGTTTGCTGAGTTACGAAGGAGGCATAAGGCTGCTGCTACTATAC AGAGCCAAGTTAAAAGCAAGATTGCTAGGATACAGTATAAGGGCATAGCCGATGCATCAGTTGT GATACAATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.250228786

Conservation Information
Conserved circRNAs	NA
PMCS	0.250228786

			
						 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 AT3G19960_circ_g.14

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