Plant Circular RNA Database

Detail information of AT1G66970_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT1G66970_circ_g.7
					
						ID in PlantcircBase
						ath_circ_008964
					
						Alias
						1:24993695-24995203
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 24993695-24995203  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G66970						
					
						Parent gene annotation
						
							SHV3-like 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G66970_circ_g.3 1_circ_ag.4 AT1G66970_circ_g.5 AT1G66970_circ_g.6 1_circ_ag.8 AT1G66970_circ_g.9 AT1G66970_circ_g.10 						
					
						Support reads
						3
					
						Tissues
						leaf
					
						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
						AT1G66970.1:4
AT1G66970.2:4
AT1G66970.3:4

General Information
CircRNA Name	AT1G66970_circ_g.7
ID in PlantcircBase	ath_circ_008964
Alias	1:24993695-24995203
Organism	Arabidpsis thaliana
Position	chr1: 24993695-24995203 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G66970
Parent gene annotation	SHV3-like 2
Parent gene strand	-
Alternative splicing	AT1G66970_circ_g.3 1_circ_ag.4 AT1G66970_circ_g.5 AT1G66970_circ_g.6 1_circ_ag.8 AT1G66970_circ_g.9 AT1G66970_circ_g.10
Support reads	3
Tissues	leaf
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	AT1G66970.1:4 AT1G66970.2:4 AT1G66970.3:4

			
						 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  
						
							AAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATCGTCGAAATCAGATATCCATTTCCAT
CGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCActctacactgatcaaaacaccggagaga
gaagtgtaagtttttgccaagtctaggaattgagaaagggaaatgagcttccctgaatttttct
ctctcgga

									
								

					

						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: 1085
Transcript exons: 24993695-24993837,24994075-24994359,24994462-24994500,24
994586-24995203
CTCTACACTGATCAAAACACCGGAGAGAGAAGTGTAAGTTTTTGCCAAGTCTAGGAATTGAGAA
AGGGAAATGAGCTTCCCTGAATTTTTCTCTCTCGGATTCCTAAAAATTCTATAAACCCTGAAGG
GGTTTGAAATAGCAGGAGTCAAGCTCTGGATCTCAGGCCATGTGAGACTAAAAGTGAATATTCC
AGGAACTGAGCTAATCTCAGGAACAGAAGTTGAGCGGTTACTAAAAGTATTTTGAAGGGCCGCT
ATGCTATTCCGGAGATCAATCGATCTTAAGCAAAAGGGTACACCGTCGCTAGACATTTGGACTG
AGCAATCGATAACATCAGCACCATCTTTGATTGCCTTCTCATATGCCAAGTCTGTACATCCAGG
ATAGTCCCCACTCGCACCATCTTTTGATATAACAAGAAAATCCACTTGTTTTGTAGCGTTTCGG
CCAATGTGGGAGAAGCAGTCAACGGCCGCAGATGCAGTGATAGGAAAATCAGAGAGCACACCAT
CGACAGAGAAATCTCCATTGTCCACAAAAGATAGATACTCGGACACTGGATCGGAACTGTAGTT
ATATGCAATATCAACGTCATTTGCGAAACCTGAAACATATACTTGTAATCCTGCTTTGTGAGCA
TCTTGAACTAAGGATGTATGTGGAACCAAGTACTGTTCGTCATCAAGTGGCAATATGTAAGACT
TTGGAACAAGAATCCCTGAAGCAAACGTCTTGACAAAGGTTAGGTTACTCAAGATAGAACCGTA
TGTTCGGTTTGTTGTCGGCTCGAAATCTTCTTTCCCAAGAAACTGGAACACAAAAGTCGGTCCG
TTACGCCCAAAACTGCCAGTAATTTTCTTAAAGAAGTTCACTTCAGGGGAAGATATGAAGTCAA
TGGAAACAGTTCTTGAAACTGATAACAGAAAACTGCTCATGCTCAGATTCTGTTGCTCATAGAA
CGCATCGTGCTGAACATTTAACCAAAAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATC
GTCGAAATCAGATATCCATTTCCATCGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCA
						
					

						Genomic sequence
						
							CTCTACACTGATCAAAACACCGGAGAGAGAAGTGTAAGTTTTTGCCAAGTCTAGGAATTGAGAA
AGGGAAATGAGCTTCCCTGAATTTTTCTCTCTCGGATTCCTAAAAATTCTATAAACCCTGAAGG
GGTTTGAAATAGCAGCTGCACAAAAAGATAAGAGAGTAGTTATTTCAACTCCAAGTTATGTAAT
CTCAAAAGTGGCCAGTAATTTTGACCACATCATATACAACCTAGGAGAATGTCAAATTGTTACT
GATATGTAACCTCTTTAAGTTAAGTAGGACTAGAAACAAGGTTCTCTGATTAGTTACTATAAAT
AGTAGCAACAAGAGTGTGCATTTGTGTGAAGCAATTTGGAAAATTTGAAGGGAAACTTACGAGT
CAAGCTCTGGATCTCAGGCCATGTGAGACTAAAAGTGAATATTCCAGGAACTGAGCTAATCTCA
GGAACAGAAGTTGAGCGGTTACTAAAAGTATTTTGAAGGGCCGCTATGCTATTCCGGAGATCAA
TCGATCTTAAGCAAAAGGGTACACCGTCGCTAGACATTTGGACTGAGCAATCGATAACATCAGC
ACCATCTTTGATTGCCTTCTCATATGCCAAGTCTGTACATCCAGGATAGTCCCCACTCGCACCA
TCTTTTGATATAACAAGAAAATCCACTGAGACATGAACCATTGGTACATGATAAAGTTAATTAT
AAGTTTCTTCTTTTTTGTTAGTAAGAGCAGAAACAAAATGTGAAGTATTAATACTCTCATTACC
TTGTTTTGTAGCGTTTCGGCCAATGTGGGAGAAGCAGTCTGAGGAAAATATGAAAAGAAGATAT
TTGATTTTTATGTTTTAGAGACAAATTAAAATAGTGTTTGTAGAAGAGATTTTGCTTACCAACG
GCCGCAGATGCAGTGATAGGAAAATCAGAGAGCACACCATCGACAGAGAAATCTCCATTGTCCA
CAAAAGATAGATACTCGGACACTGGATCGGAACTGTAGTTATATGCAATATCAACGTCATTTGC
GAAACCTGAAACATATACTTGTAATCCTGCTTTGTGAGCATCTTGAACTAAGGATGTATGTGGA
ACCAAGTACTGTTCGTCATCAAGTGGCAATATGTAAGACTTTGGAACAAGAATCCCTGAAGCAA
ACGTCTTGACAAAGGTTAGGTTACTCAAGATAGAACCGTATGTTCGGTTTGTTGTCGGCTCGAA
ATCTTCTTTCCCAAGAAACTGGAACACAAAAGTCGGTCCGTTACGCCCAAAACTGCCAGTAATT
TTCTTAAAGAAGTTCACTTCAGGGGAAGATATGAAGTCAATGGAAACAGTTCTTGAAACTGATA
ACAGAAAACTGCTCATGCTCAGATTCTGTTGCTCATAGAACGCATCGTGCTGAACATTTAACCA
AAAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATCGTCGAAATCAGATATCCATTTCCA
TCGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCA
						
					

			
		

Sequences
Splice junction sequence	AAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATCGTCGAAATCAGATATCCATTTCCAT CGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCActctacactgatcaaaacaccggagaga gaagtgtaagtttttgccaagtctaggaattgagaaagggaaatgagcttccctgaatttttct ctctcgga
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: 1085 Transcript exons: 24993695-24993837,24994075-24994359,24994462-24994500,24 994586-24995203 CTCTACACTGATCAAAACACCGGAGAGAGAAGTGTAAGTTTTTGCCAAGTCTAGGAATTGAGAA AGGGAAATGAGCTTCCCTGAATTTTTCTCTCTCGGATTCCTAAAAATTCTATAAACCCTGAAGG GGTTTGAAATAGCAGGAGTCAAGCTCTGGATCTCAGGCCATGTGAGACTAAAAGTGAATATTCC AGGAACTGAGCTAATCTCAGGAACAGAAGTTGAGCGGTTACTAAAAGTATTTTGAAGGGCCGCT ATGCTATTCCGGAGATCAATCGATCTTAAGCAAAAGGGTACACCGTCGCTAGACATTTGGACTG AGCAATCGATAACATCAGCACCATCTTTGATTGCCTTCTCATATGCCAAGTCTGTACATCCAGG ATAGTCCCCACTCGCACCATCTTTTGATATAACAAGAAAATCCACTTGTTTTGTAGCGTTTCGG CCAATGTGGGAGAAGCAGTCAACGGCCGCAGATGCAGTGATAGGAAAATCAGAGAGCACACCAT CGACAGAGAAATCTCCATTGTCCACAAAAGATAGATACTCGGACACTGGATCGGAACTGTAGTT ATATGCAATATCAACGTCATTTGCGAAACCTGAAACATATACTTGTAATCCTGCTTTGTGAGCA TCTTGAACTAAGGATGTATGTGGAACCAAGTACTGTTCGTCATCAAGTGGCAATATGTAAGACT TTGGAACAAGAATCCCTGAAGCAAACGTCTTGACAAAGGTTAGGTTACTCAAGATAGAACCGTA TGTTCGGTTTGTTGTCGGCTCGAAATCTTCTTTCCCAAGAAACTGGAACACAAAAGTCGGTCCG TTACGCCCAAAACTGCCAGTAATTTTCTTAAAGAAGTTCACTTCAGGGGAAGATATGAAGTCAA TGGAAACAGTTCTTGAAACTGATAACAGAAAACTGCTCATGCTCAGATTCTGTTGCTCATAGAA CGCATCGTGCTGAACATTTAACCAAAAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATC GTCGAAATCAGATATCCATTTCCATCGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCA
Genomic sequence	CTCTACACTGATCAAAACACCGGAGAGAGAAGTGTAAGTTTTTGCCAAGTCTAGGAATTGAGAA AGGGAAATGAGCTTCCCTGAATTTTTCTCTCTCGGATTCCTAAAAATTCTATAAACCCTGAAGG GGTTTGAAATAGCAGCTGCACAAAAAGATAAGAGAGTAGTTATTTCAACTCCAAGTTATGTAAT CTCAAAAGTGGCCAGTAATTTTGACCACATCATATACAACCTAGGAGAATGTCAAATTGTTACT GATATGTAACCTCTTTAAGTTAAGTAGGACTAGAAACAAGGTTCTCTGATTAGTTACTATAAAT AGTAGCAACAAGAGTGTGCATTTGTGTGAAGCAATTTGGAAAATTTGAAGGGAAACTTACGAGT CAAGCTCTGGATCTCAGGCCATGTGAGACTAAAAGTGAATATTCCAGGAACTGAGCTAATCTCA GGAACAGAAGTTGAGCGGTTACTAAAAGTATTTTGAAGGGCCGCTATGCTATTCCGGAGATCAA TCGATCTTAAGCAAAAGGGTACACCGTCGCTAGACATTTGGACTGAGCAATCGATAACATCAGC ACCATCTTTGATTGCCTTCTCATATGCCAAGTCTGTACATCCAGGATAGTCCCCACTCGCACCA TCTTTTGATATAACAAGAAAATCCACTGAGACATGAACCATTGGTACATGATAAAGTTAATTAT AAGTTTCTTCTTTTTTGTTAGTAAGAGCAGAAACAAAATGTGAAGTATTAATACTCTCATTACC TTGTTTTGTAGCGTTTCGGCCAATGTGGGAGAAGCAGTCTGAGGAAAATATGAAAAGAAGATAT TTGATTTTTATGTTTTAGAGACAAATTAAAATAGTGTTTGTAGAAGAGATTTTGCTTACCAACG GCCGCAGATGCAGTGATAGGAAAATCAGAGAGCACACCATCGACAGAGAAATCTCCATTGTCCA CAAAAGATAGATACTCGGACACTGGATCGGAACTGTAGTTATATGCAATATCAACGTCATTTGC GAAACCTGAAACATATACTTGTAATCCTGCTTTGTGAGCATCTTGAACTAAGGATGTATGTGGA ACCAAGTACTGTTCGTCATCAAGTGGCAATATGTAAGACTTTGGAACAAGAATCCCTGAAGCAA ACGTCTTGACAAAGGTTAGGTTACTCAAGATAGAACCGTATGTTCGGTTTGTTGTCGGCTCGAA ATCTTCTTTCCCAAGAAACTGGAACACAAAAGTCGGTCCGTTACGCCCAAAACTGCCAGTAATT TTCTTAAAGAAGTTCACTTCAGGGGAAGATATGAAGTCAATGGAAACAGTTCTTGAAACTGATA ACAGAAAACTGCTCATGCTCAGATTCTGTTGCTCATAGAACGCATCGTGCTGAACATTTAACCA AAAACCTTCTCGATTTAGTGTGGTTACTACATCTTCAATCGTCGAAATCAGATATCCATTTCCA TCGAATCTATCGGTTCGTGAAAGTATTCCTCGGATCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.203987487

Conservation Information
Conserved circRNAs	NA
PMCS	0.203987487

			
						 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 AT1G66970_circ_g.7

Address

Any questions?

Supported by