Plant Circular RNA Database

Detail information of AT3G22190_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G22190_circ_g.2
					
						ID in PlantcircBase
						ath_circ_023173
					
						Alias
						At_ciR1868, Ath_circ_FC2117
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 7831735-7833556  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							AT3G22190						
					
						Parent gene annotation
						
							IQD5
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G22190_circ_g.1 AT3G22190_circ_g.3 AT3G22190_circ_g.4 						
					
						Support reads
						5/7
					
						Tissues
						leaf/whole_plant
					
						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
						AT3G22190.1:5
AT3G22190.4:5
AT3G22190.2:5
AT3G22190.3:5

General Information
CircRNA Name	AT3G22190_circ_g.2
ID in PlantcircBase	ath_circ_023173
Alias	At_ciR1868, Ath_circ_FC2117
Organism	Arabidpsis thaliana
Position	chr3: 7831735-7833556 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	AT3G22190
Parent gene annotation	IQD5
Parent gene strand	-
Alternative splicing	AT3G22190_circ_g.1 AT3G22190_circ_g.3 AT3G22190_circ_g.4
Support reads	5/7
Tissues	leaf/whole_plant
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	AT3G22190.1:5 AT3G22190.4:5 AT3G22190.2:5 AT3G22190.3:5

			
						 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  
						
							TTATCAGATTTAGTAAAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTC
AATTCCAACGATCAGCAACATAAAACAACACAAAACcgctgtttggcagagataatcgttcttt
tgaagatcgatttggttctcttgatctttctttcggattgctgtgtgatcttggaccagcacca
ggtcttga

									
								

					

						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: 1173
Transcript exons: 7831735-7832209,7832556-7832669,7832771-7833004,7833110-
7833331,7833429-7833556
CGCTGTTTGGCAGAGATAATCGTTCTTTTGAAGATCGATTTGGTTCTCTTGATCTTTCTTTCGG
ATTGCTGTGTGATCTTGGACCAGCACCAGGTCTTGAGTTAACTTCTACAGCAAGATCGTCTTTA
GCTGGCTTTGACTTAGCCTTGGATACCACTGGAATGCTTGAAGATATTCCAGGAGAAGACGAAT
CACCATCCGACTGACACGGGCCAGTCATCTGACTTGAAACACCGGATACAAGATTTGAAGTGTT
TGGCATCTTACTCACACTTTTGATCTGCGTTTTAGGTACATTCTCAGACTGCTCCATGCCGTTT
TCACCTAATTTTGCATCATCCCTGAGGTTACTGTCAAGAAACCGGTTCTCCCATGGACGCACTG
CCATCCATCTTTCCAACCAGTTCCATCCCCAATTGTTTTTGTCAGGTTGAAAGCCACTGTGAGC
AGATAACAGCCGAGTTCCTGCCTGCCACTGGTGAGTCAAAGCATATGCCATCGCTCTCTCACGC
TTAGCTGCAGCTTCCTGCCTCTTTAGCAGCTTGGCTTGAATTTGTTCAACAGATCCAATGCTAT
CGCACCAACCTTCCTCTATTTCTCGAACTCGGGCTTCATCTGCTAACTGTTGTTGAAGTGTCTG
CTGACTCGTCTCACTTTCCAATTCCAAGGCGAGACGAACACGTCTTGCGCGTACACGAGCCTGA
ACTCTTACCAACGCTTGCATGCATCGAAGCGTTACAGCAGCTTGTTTTCTCACAGCATGTCCTC
TAACAAGGGCTTGAAGTCTAACCAATCCCTTCAACGCTCGTAAAGCCCTCCTAGCCAGAAATCC
CCGATAAGCCGTTTGGATACGCGTTGCAGCCCGATTTTCCCTACTTTGTTCGTCATAAGCAACA
CCCCCATATGATTGTAGTGAAGTTGAAGTAGAGACCCCAGTATCAACCATACTACGCGTATTGG
AATCTTCAAATCCATCTTGAAACTTTTCAAAGTCAAAATCAACTGAATTCTTTCTCCCAAACCT
ACTCTTGGTAGCAACCTTCACATTTTCATCTTTCTTGGAAGACCTAGACTTATCAGATTTAGTA
AAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTCAATTCCAACGATCAG
CAACATAAAACAACACAAAAC
						
					

						Genomic sequence
						
							CGCTGTTTGGCAGAGATAATCGTTCTTTTGAAGATCGATTTGGTTCTCTTGATCTTTCTTTCGG
ATTGCTGTGTGATCTTGGACCAGCACCAGGTCTTGAGTTAACTTCTACAGCAAGATCGTCTTTA
GCTGGCTTTGACTTAGCCTTGGATACCACTGGAATGCTTGAAGATATTCCAGGAGAAGACGAAT
CACCATCCGACTGACACGGGCCAGTCATCTGACTTGAAACACCGGATACAAGATTTGAAGTGTT
TGGCATCTTACTCACACTTTTGATCTGCGTTTTAGGTACATTCTCAGACTGCTCCATGCCGTTT
TCACCTAATTTTGCATCATCCCTGAGGTTACTGTCAAGAAACCGGTTCTCCCATGGACGCACTG
CCATCCATCTTTCCAACCAGTTCCATCCCCAATTGTTTTTGTCAGGTTGAAAGCCACTGTGAGC
AGATAACAGCCGAGTTCCTGCCTGCCACTACAAGAGAGCAATTCTCTATGTGAGAGAAAGTAAC
ATTATAGCCACATATAAAACAAGAGAACCAGACACTATTAATGGGGCTAGGATTAGGCTAGGTG
GCCATCGTAAAAAGATACACTTAAAGAGAAATAAAATAGACTGCTGCAGAAGAGAGTTAAGAAA
AGGAACCAGACAAAAACAACACTTTAAGTAGAGAGCTTCAGTTTTGCAAGTCATAGTGCGTTAG
TTAAAAATTGGTCCTAATAAAGAGAACTCATGATTTATCAGATTCACTATTCAGGGATGTTATT
TTTCGAACAAATTGAACAAATACAAGCAATTACTTCTTAGGCAGAGTAGTAACCTGGTGAGTCA
AAGCATATGCCATCGCTCTCTCACGCTTAGCTGCAGCTTCCTGCCTCTTTAGCAGCTTGGCTTG
AATTTGTTCAACAGATCCAATGCTATCGCACCAACCTTCCTGAAAGATGATAACACATAGTCAA
CATGACTGTTATTAAAGGCCAACCAGAAGATAAACAAATACAAAGTTTGTAAACAACTTAGACA
AGTGACAGGCACCTCTATTTCTCGAACTCGGGCTTCATCTGCTAACTGTTGTTGAAGTGTCTGC
TGACTCGTCTCACTTTCCAATTCCAAGGCGAGACGAACACGTCTTGCGCGTACACGAGCCTGAA
CTCTTACCAACGCTTGCATGCATCGAAGCGTTACAGCAGCTTGTTTTCTCACAGCATGTCCTCT
AACAAGGGCTTGAAGTCTAACCAATCCCTTCAACGCTCGTAAAGCCCTCCTAGCCTAATAAATA
TATCATCTTCCTTATCAATCCACTCTTCTTTTTAAAACCAATGAACTAGCATCACTAAACCATA
AGTAAAGCAACTTAATAAGGCAAATTGATACCAGAAATCCCCGATAAGCCGTTTGGATACGCGT
TGCAGCCCGATTTTCCCTACTTTGTTCGTCATAAGCAACACCCCCATATGATTGTAGTGAAGTT
GAAGTAGAGACCCCAGTATCAACCATACTACGCGTATTGGAATCTTCAAATCCATCTTGAAACT
TTTCAAAGTCAAAATCAACTGAATTCTTTCTCCCAAACCTACTCTTGGTAGCAACCTTCACCTT
CATCAGTTAAACAAACACAGAAATGAACCAACATTGGCATAATTAAGACAAAAAGAAAGAAACT
CTTGTAATAATCTTCCTTTGAAGTACTCACATTTTCATCTTTCTTGGAAGACCTAGACTTATCA
GATTTAGTAAAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTCAATTCC
AACGATCAGCAACATAAAACAACACAAAAC
						
					

			
		

Sequences
Splice junction sequence	TTATCAGATTTAGTAAAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTC AATTCCAACGATCAGCAACATAAAACAACACAAAACcgctgtttggcagagataatcgttcttt tgaagatcgatttggttctcttgatctttctttcggattgctgtgtgatcttggaccagcacca ggtcttga
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: 1173 Transcript exons: 7831735-7832209,7832556-7832669,7832771-7833004,7833110- 7833331,7833429-7833556 CGCTGTTTGGCAGAGATAATCGTTCTTTTGAAGATCGATTTGGTTCTCTTGATCTTTCTTTCGG ATTGCTGTGTGATCTTGGACCAGCACCAGGTCTTGAGTTAACTTCTACAGCAAGATCGTCTTTA GCTGGCTTTGACTTAGCCTTGGATACCACTGGAATGCTTGAAGATATTCCAGGAGAAGACGAAT CACCATCCGACTGACACGGGCCAGTCATCTGACTTGAAACACCGGATACAAGATTTGAAGTGTT TGGCATCTTACTCACACTTTTGATCTGCGTTTTAGGTACATTCTCAGACTGCTCCATGCCGTTT TCACCTAATTTTGCATCATCCCTGAGGTTACTGTCAAGAAACCGGTTCTCCCATGGACGCACTG CCATCCATCTTTCCAACCAGTTCCATCCCCAATTGTTTTTGTCAGGTTGAAAGCCACTGTGAGC AGATAACAGCCGAGTTCCTGCCTGCCACTGGTGAGTCAAAGCATATGCCATCGCTCTCTCACGC TTAGCTGCAGCTTCCTGCCTCTTTAGCAGCTTGGCTTGAATTTGTTCAACAGATCCAATGCTAT CGCACCAACCTTCCTCTATTTCTCGAACTCGGGCTTCATCTGCTAACTGTTGTTGAAGTGTCTG CTGACTCGTCTCACTTTCCAATTCCAAGGCGAGACGAACACGTCTTGCGCGTACACGAGCCTGA ACTCTTACCAACGCTTGCATGCATCGAAGCGTTACAGCAGCTTGTTTTCTCACAGCATGTCCTC TAACAAGGGCTTGAAGTCTAACCAATCCCTTCAACGCTCGTAAAGCCCTCCTAGCCAGAAATCC CCGATAAGCCGTTTGGATACGCGTTGCAGCCCGATTTTCCCTACTTTGTTCGTCATAAGCAACA CCCCCATATGATTGTAGTGAAGTTGAAGTAGAGACCCCAGTATCAACCATACTACGCGTATTGG AATCTTCAAATCCATCTTGAAACTTTTCAAAGTCAAAATCAACTGAATTCTTTCTCCCAAACCT ACTCTTGGTAGCAACCTTCACATTTTCATCTTTCTTGGAAGACCTAGACTTATCAGATTTAGTA AAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTCAATTCCAACGATCAG CAACATAAAACAACACAAAAC
Genomic sequence	CGCTGTTTGGCAGAGATAATCGTTCTTTTGAAGATCGATTTGGTTCTCTTGATCTTTCTTTCGG ATTGCTGTGTGATCTTGGACCAGCACCAGGTCTTGAGTTAACTTCTACAGCAAGATCGTCTTTA GCTGGCTTTGACTTAGCCTTGGATACCACTGGAATGCTTGAAGATATTCCAGGAGAAGACGAAT CACCATCCGACTGACACGGGCCAGTCATCTGACTTGAAACACCGGATACAAGATTTGAAGTGTT TGGCATCTTACTCACACTTTTGATCTGCGTTTTAGGTACATTCTCAGACTGCTCCATGCCGTTT TCACCTAATTTTGCATCATCCCTGAGGTTACTGTCAAGAAACCGGTTCTCCCATGGACGCACTG CCATCCATCTTTCCAACCAGTTCCATCCCCAATTGTTTTTGTCAGGTTGAAAGCCACTGTGAGC AGATAACAGCCGAGTTCCTGCCTGCCACTACAAGAGAGCAATTCTCTATGTGAGAGAAAGTAAC ATTATAGCCACATATAAAACAAGAGAACCAGACACTATTAATGGGGCTAGGATTAGGCTAGGTG GCCATCGTAAAAAGATACACTTAAAGAGAAATAAAATAGACTGCTGCAGAAGAGAGTTAAGAAA AGGAACCAGACAAAAACAACACTTTAAGTAGAGAGCTTCAGTTTTGCAAGTCATAGTGCGTTAG TTAAAAATTGGTCCTAATAAAGAGAACTCATGATTTATCAGATTCACTATTCAGGGATGTTATT TTTCGAACAAATTGAACAAATACAAGCAATTACTTCTTAGGCAGAGTAGTAACCTGGTGAGTCA AAGCATATGCCATCGCTCTCTCACGCTTAGCTGCAGCTTCCTGCCTCTTTAGCAGCTTGGCTTG AATTTGTTCAACAGATCCAATGCTATCGCACCAACCTTCCTGAAAGATGATAACACATAGTCAA CATGACTGTTATTAAAGGCCAACCAGAAGATAAACAAATACAAAGTTTGTAAACAACTTAGACA AGTGACAGGCACCTCTATTTCTCGAACTCGGGCTTCATCTGCTAACTGTTGTTGAAGTGTCTGC TGACTCGTCTCACTTTCCAATTCCAAGGCGAGACGAACACGTCTTGCGCGTACACGAGCCTGAA CTCTTACCAACGCTTGCATGCATCGAAGCGTTACAGCAGCTTGTTTTCTCACAGCATGTCCTCT AACAAGGGCTTGAAGTCTAACCAATCCCTTCAACGCTCGTAAAGCCCTCCTAGCCTAATAAATA TATCATCTTCCTTATCAATCCACTCTTCTTTTTAAAACCAATGAACTAGCATCACTAAACCATA AGTAAAGCAACTTAATAAGGCAAATTGATACCAGAAATCCCCGATAAGCCGTTTGGATACGCGT TGCAGCCCGATTTTCCCTACTTTGTTCGTCATAAGCAACACCCCCATATGATTGTAGTGAAGTT GAAGTAGAGACCCCAGTATCAACCATACTACGCGTATTGGAATCTTCAAATCCATCTTGAAACT TTTCAAAGTCAAAATCAACTGAATTCTTTCTCCCAAACCTACTCTTGGTAGCAACCTTCACCTT CATCAGTTAAACAAACACAGAAATGAACCAACATTGGCATAATTAAGACAAAAAGAAAGAAACT CTTGTAATAATCTTCCTTTGAAGTACTCACATTTTCATCTTTCTTGGAAGACCTAGACTTATCA GATTTAGTAAAACCAACCAATGCTTTAATCCATCTCCCTGAAGCTCCCATTCTATCTCAATTCC AACGATCAGCAACATAAAACAACACAAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.378935551

Conservation Information
Conserved circRNAs	NA
PMCS	0.378935551

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT3G22190_circ_g.2

Address

Any questions?

Supported by