Plant Circular RNA Database

Detail information of AT1G22870_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G22870_circ_g.2
					
						ID in PlantcircBase
						ath_circ_003969
					
						Alias
						1:8090767-8092416
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 8090767-8092416  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G22870						
					
						Parent gene annotation
						
							Kinase family with ARM repeat domain-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G22870_circ_g.1 						
					
						Support reads
						1/1
					
						Tissues
						root;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  
						
							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
						AT1G22870.4:6
AT1G22870.1:6
AT1G22870.2:6
AT1G22870.3:6

General Information
CircRNA Name	AT1G22870_circ_g.2
ID in PlantcircBase	ath_circ_003969
Alias	1:8090767-8092416
Organism	Arabidpsis thaliana
Position	chr1: 8090767-8092416 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G22870
Parent gene annotation	Kinase family with ARM repeat domain-containing protein
Parent gene strand	+
Alternative splicing	AT1G22870_circ_g.1
Support reads	1/1
Tissues	root;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	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	AT1G22870.4:6 AT1G22870.1:6 AT1G22870.2:6 AT1G22870.3:6

			
						 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  
						
							CCTCCCTTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGGAGGAAGTTCTGAAA
AGATCTACATCTGTTGCTAAACAACTCGATGGTCAGtacatgaacacattgaactatttaacaa
atgaaactttctcatctataccctcggacttggtatctgatttacaacggatgctatcaatgaa
cgagtcat

									
								

					

						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: 606
Transcript exons: 8090767-8090893,8090994-8091055,8091152-8091238,8091349-
8091435,8091741-8091854,8092288-8092416
TACATGAACACATTGAACTATTTAACAAATGAAACTTTCTCATCTATACCCTCGGACTTGGTAT
CTGATTTACAACGGATGCTATCAATGAACGAGTCATATAGACCAACAGCTTTAGATTTCACAGG
ATCTAGTTTTTTCCGAAGCGACACTAGGTTGCGTGCCCTCCGTTTCCTTGATCATATGCTTGAG
AGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATT
CTCGTGTATTACGGTATAAGGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCA
ACCAGTGATTCTTCCCATGGTTCTAACTATAGCAGAGTCTCAGGATAAAAATGACTTTGAGTTG
ACAACGCTCCCAGCCCTTGTTCCTGTCTTAAGTACTGCTACGGGTGATACATTACTGTTGCTTA
TAAAGCGTGCAGAGCTAATTATTAACAAGACTAATGCAGAGCATCTTGTATCACATGTCCTCCC
TTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGGAGGAAGTTCTGAAAAGATCT
ACATCTGTTGCTAAACAACTCGATGGTCAG
						
					

						Genomic sequence
						
							TACATGAACACATTGAACTATTTAACAAATGAAACTTTCTCATCTATACCCTCGGACTTGGTAT
CTGATTTACAACGGATGCTATCAATGAACGAGTCATATAGACCAACAGCTTTAGATTTCACAGG
TAGGAATACTGAGCTTCATGTGGTTTGATTATTTCTTGTGACAAACTTTACCTCCTTGCTTGTT
ACACTTATATCTTGAACTTGAACTTTCACCTGCAGGATCTAGTTTTTTCCGAAGCGACACTAGG
TTGCGTGCCCTCCGTTTCCTTGATCATATGCTTGTATGTATATTAAATTTTAATCATCGTTTCA
GACAGACGTGATTTTGATAGTTGGAAACATATAAAACCTTTGGGGCATTTTTTTATTTATTGCA
GGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTT
GATTCTCGTGTATTACGGTATAAGGTAGTCACTTTCTGGATTCTTTTGCGTATTCTGTTACTTA
ACAGAAAACAAATCAGTTACTCAAGTGATTTGCCTAGTAACAACTAATCAAACCAGGTTTTGTC
AAGCAGGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCAACCAGTGATTCTTC
CCATGGTTCTAACTATAGCAGAGTCTCAGGTGCTTTTTCTAATCTTAAGTACTTACATTTCGTC
AATCAGATCGTATTCTATTGGAGGTTTACAGATACCAGTGATTCTATATAAAATTTGTTTTTCT
TATTACTTGTGTTATATGACCTATCACATGCACATATACTTAGACCTGATTATTTCAGTTGTAC
ATATGGTGATTGCACAAATAAATACCGGCATTATCAACCTGTCATGTGTTACTTGGAAGTTGCA
TTGATCTTGGACAAGAATTTCTTTTAGATCTTTACTCATGCTTTAATGATGCTTGAGACCTTAA
ATAATGATTTGCAGGATAAAAATGACTTTGAGTTGACAACGCTCCCAGCCCTTGTTCCTGTCTT
AAGTACTGCTACGGGTGATACATTACTGTTGCTTATAAAGCGTGCAGAGCTAATTATTAACAAG
GTAAATCTCTAACCAATATGTATGCATAACTAAAAGTCTAAAACTATGTGATGTATGCATAACT
GGAACTATGTTTTTGAACCCTGCGTATTTAGTGTCTGCTAAATTCTACCGATTTGACACAATGG
GATAGGGTAAATGAATAAAAGTGCAAAGTATAGTTACTTATCTATGACTTATCTGGTGCCATTA
CTTATAATTTTAAATAATTGGTAGTCCCACACATGAATCCTTATGCTTTCTTACACCAATAACC
TTCATTTTCTTAAAGCTGACACATATTTCTCTCTTGACTTCTATTGCTAACTGCTAATTGCTTC
TTTGCTACAATTCTAAATATGCTTAAAATGGTATCACTTTTCTCTTATTCATTTATTATCTTAC
TCCCTCGGCCCTCAGATCTTTACTATTGTGTTTTTGTATAAATTTGTAGACTAATGCAGAGCAT
CTTGTATCACATGTCCTCCCTTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGG
AGGAAGTTCTGAAAAGATCTACATCTGTTGCTAAACAACTCGATGGTCAG
						
					

			
		

Sequences
Splice junction sequence	CCTCCCTTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGGAGGAAGTTCTGAAA AGATCTACATCTGTTGCTAAACAACTCGATGGTCAGtacatgaacacattgaactatttaacaa atgaaactttctcatctataccctcggacttggtatctgatttacaacggatgctatcaatgaa cgagtcat
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: 606 Transcript exons: 8090767-8090893,8090994-8091055,8091152-8091238,8091349- 8091435,8091741-8091854,8092288-8092416 TACATGAACACATTGAACTATTTAACAAATGAAACTTTCTCATCTATACCCTCGGACTTGGTAT CTGATTTACAACGGATGCTATCAATGAACGAGTCATATAGACCAACAGCTTTAGATTTCACAGG ATCTAGTTTTTTCCGAAGCGACACTAGGTTGCGTGCCCTCCGTTTCCTTGATCATATGCTTGAG AGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATT CTCGTGTATTACGGTATAAGGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCA ACCAGTGATTCTTCCCATGGTTCTAACTATAGCAGAGTCTCAGGATAAAAATGACTTTGAGTTG ACAACGCTCCCAGCCCTTGTTCCTGTCTTAAGTACTGCTACGGGTGATACATTACTGTTGCTTA TAAAGCGTGCAGAGCTAATTATTAACAAGACTAATGCAGAGCATCTTGTATCACATGTCCTCCC TTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGGAGGAAGTTCTGAAAAGATCT ACATCTGTTGCTAAACAACTCGATGGTCAG
Genomic sequence	TACATGAACACATTGAACTATTTAACAAATGAAACTTTCTCATCTATACCCTCGGACTTGGTAT CTGATTTACAACGGATGCTATCAATGAACGAGTCATATAGACCAACAGCTTTAGATTTCACAGG TAGGAATACTGAGCTTCATGTGGTTTGATTATTTCTTGTGACAAACTTTACCTCCTTGCTTGTT ACACTTATATCTTGAACTTGAACTTTCACCTGCAGGATCTAGTTTTTTCCGAAGCGACACTAGG TTGCGTGCCCTCCGTTTCCTTGATCATATGCTTGTATGTATATTAAATTTTAATCATCGTTTCA GACAGACGTGATTTTGATAGTTGGAAACATATAAAACCTTTGGGGCATTTTTTTATTTATTGCA GGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTT GATTCTCGTGTATTACGGTATAAGGTAGTCACTTTCTGGATTCTTTTGCGTATTCTGTTACTTA ACAGAAAACAAATCAGTTACTCAAGTGATTTGCCTAGTAACAACTAATCAAACCAGGTTTTGTC AAGCAGGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCAACCAGTGATTCTTC CCATGGTTCTAACTATAGCAGAGTCTCAGGTGCTTTTTCTAATCTTAAGTACTTACATTTCGTC AATCAGATCGTATTCTATTGGAGGTTTACAGATACCAGTGATTCTATATAAAATTTGTTTTTCT TATTACTTGTGTTATATGACCTATCACATGCACATATACTTAGACCTGATTATTTCAGTTGTAC ATATGGTGATTGCACAAATAAATACCGGCATTATCAACCTGTCATGTGTTACTTGGAAGTTGCA TTGATCTTGGACAAGAATTTCTTTTAGATCTTTACTCATGCTTTAATGATGCTTGAGACCTTAA ATAATGATTTGCAGGATAAAAATGACTTTGAGTTGACAACGCTCCCAGCCCTTGTTCCTGTCTT AAGTACTGCTACGGGTGATACATTACTGTTGCTTATAAAGCGTGCAGAGCTAATTATTAACAAG GTAAATCTCTAACCAATATGTATGCATAACTAAAAGTCTAAAACTATGTGATGTATGCATAACT GGAACTATGTTTTTGAACCCTGCGTATTTAGTGTCTGCTAAATTCTACCGATTTGACACAATGG GATAGGGTAAATGAATAAAAGTGCAAAGTATAGTTACTTATCTATGACTTATCTGGTGCCATTA CTTATAATTTTAAATAATTGGTAGTCCCACACATGAATCCTTATGCTTTCTTACACCAATAACC TTCATTTTCTTAAAGCTGACACATATTTCTCTCTTGACTTCTATTGCTAACTGCTAATTGCTTC TTTGCTACAATTCTAAATATGCTTAAAATGGTATCACTTTTCTCTTATTCATTTATTATCTTAC TCCCTCGGCCCTCAGATCTTTACTATTGTGTTTTTGTATAAATTTGTAGACTAATGCAGAGCAT CTTGTATCACATGTCCTCCCTTTGCTTCTCCGAGCCTACAATGATAATGATGTCCGGATACAGG AGGAAGTTCTGAAAAGATCTACATCTGTTGCTAAACAACTCGATGGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.190214998

Conservation Information
Conserved circRNAs	NA
PMCS	0.190214998

			
						 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 AT1G22870_circ_g.2

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