Plant Circular RNA Database

Detail information of AT2G47470_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G47470_circ_g.4
					
						ID in PlantcircBase
						ath_circ_018863
					
						Alias
						2:19481863-19483418
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 19481863-19483418  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G47470						
					
						Parent gene annotation
						
							UNE5
							
						Parent gene strand
						+
					
						Alternative splicing
						
							2_circ_ag.17 AT2G47440_circ_g.1 AT2G47440_circ_g.2 AT2G47450_circ_g.1 AT2G47470_circ_g.1 AT2G47470_circ_g.2 AT2G47470_circ_g.3 AT2G47470_circ_g.5 AT2G47470_circ_g.6 AT2G47470_circ_g.7 AT2G47470_circ_g.8 AT2G47470_circ_g.9 AT2G47470_circ_g.10 AT2G47470_circ_g.11 AT2G47490_circ_g.1 AT2G47500_circ_g.1 AT2G47500_circ_g.2 AT2G47500_circ_g.3 AT2G47500_circ_g.4 AT2G47500_circ_g.5 AT2G47500_circ_g.6 AT2G47500_circ_g.7 AT2G47500_circ_g.8 AT2G47500_circ_g.9 AT2G47500_circ_g.10 AT2G47510_circ_g.1 AT2G47510_circ_g.2 AT2G47510_circ_g.3 AT2G47510_circ_g.4 AT2G47510_circ_g.5 AT2G47510_circ_g.6 AT2G47510_circ_g.7 AT2G47510_circ_g.8 AT2G47510_circ_g.9 AT2G47510_circ_g.10 AT2G47510_circ_g.11 AT2G47510_circ_g.12 AT2G47510_circ_g.13 AT2G47510_circ_g.14 AT2G47510_circ_g.15 AT2G47510_circ_g.16 AT2G47510_circ_g.17 AT2G47590_circ_g.1 AT2G47600_circ_g.1 AT2G47610_circ_g.1 AT2G47610_circ_g.2 AT2G47610_circ_g.3 AT2G47610_circ_g.4 AT2G47610_circ_g.5 AT2G47610_circ_g.6 AT2G47610_circ_g.7 AT2G47630_circ_g.1 AT2G47640_circ_g.1 AT2G47650_circ_g.1 AT2G47650_circ_g.2 AT2G47650_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						flower
					
						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
						AT2G47470.3:8
AT2G47470.4:8
AT2G47470.2:8
AT2G47470.1:8

General Information
CircRNA Name	AT2G47470_circ_g.4
ID in PlantcircBase	ath_circ_018863
Alias	2:19481863-19483418
Organism	Arabidpsis thaliana
Position	chr2: 19481863-19483418 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G47470
Parent gene annotation	UNE5
Parent gene strand	+
Alternative splicing	2_circ_ag.17 AT2G47440_circ_g.1 AT2G47440_circ_g.2 AT2G47450_circ_g.1 AT2G47470_circ_g.1 AT2G47470_circ_g.2 AT2G47470_circ_g.3 AT2G47470_circ_g.5 AT2G47470_circ_g.6 AT2G47470_circ_g.7 AT2G47470_circ_g.8 AT2G47470_circ_g.9 AT2G47470_circ_g.10 AT2G47470_circ_g.11 AT2G47490_circ_g.1 AT2G47500_circ_g.1 AT2G47500_circ_g.2 AT2G47500_circ_g.3 AT2G47500_circ_g.4 AT2G47500_circ_g.5 AT2G47500_circ_g.6 AT2G47500_circ_g.7 AT2G47500_circ_g.8 AT2G47500_circ_g.9 AT2G47500_circ_g.10 AT2G47510_circ_g.1 AT2G47510_circ_g.2 AT2G47510_circ_g.3 AT2G47510_circ_g.4 AT2G47510_circ_g.5 AT2G47510_circ_g.6 AT2G47510_circ_g.7 AT2G47510_circ_g.8 AT2G47510_circ_g.9 AT2G47510_circ_g.10 AT2G47510_circ_g.11 AT2G47510_circ_g.12 AT2G47510_circ_g.13 AT2G47510_circ_g.14 AT2G47510_circ_g.15 AT2G47510_circ_g.16 AT2G47510_circ_g.17 AT2G47590_circ_g.1 AT2G47600_circ_g.1 AT2G47610_circ_g.1 AT2G47610_circ_g.2 AT2G47610_circ_g.3 AT2G47610_circ_g.4 AT2G47610_circ_g.5 AT2G47610_circ_g.6 AT2G47610_circ_g.7 AT2G47630_circ_g.1 AT2G47640_circ_g.1 AT2G47650_circ_g.1 AT2G47650_circ_g.2 AT2G47650_circ_g.3
Support reads	2
Tissues	flower
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	AT2G47470.3:8 AT2G47470.4:8 AT2G47470.2:8 AT2G47470.1:8

			
						 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  
						
							CTTTGGTAAAAGAGTTAGTTGCAGCTAGTGAAGATGAGAAGAAGGCAGTGTTGTCTCGCATAGA
AGAGGAAGCAAGTACCCTTAAGGGCTCCACCACGAGgtgtggtcactgcaagaaacttgctcca
gagtatgaaaagctaggggcaagcttcaagaaggctaagtctgtgttgattgcaaaggttagtg
tgattcta

									
								

					

						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: 759
Transcript exons: 19481863-19481947,19482036-19482133,19482246-19482301,19
482547-19482664,19482750-19482777,19482863-19482954,1948
3052-19483208,19483294-19483418
GTGTGGTCACTGCAAGAAACTTGCTCCAGAGTATGAAAAGCTAGGGGCAAGCTTCAAGAAGGCT
AAGTCTGTGTTGATTGCAAAGGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTG
TTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAGTATGAGGG
TCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAGGCACCAACGTAAAATTA
GCTGCAGTTCCACAAAACGTGGTTGTTTTGACACCTGACAATTTCGATGAGATTGTTCTGGATC
AAAACAAAGATGTCCTAGTCGAATTTTATGCACCATGGTGTGGCCACTGCAAATCACTCGCTCC
CACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGAT
GCTGATGCACACAAAGCCCTTGGCGAGAAATATGGAGTGAGTGGATTCCCAACATTGAAATTCT
TCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGACTTTGTAAG
CTTCATCAACGAGAAATCTGGGACCAGCAGGGACAGTAAAGGGCAGCTTACTTCAAAGGCTGGT
ATAGTCGAAAGCTTAGATGCTTTGGTAAAAGAGTTAGTTGCAGCTAGTGAAGATGAGAAGAAGG
CAGTGTTGTCTCGCATAGAAGAGGAAGCAAGTACCCTTAAGGGCTCCACCACGAG
						
					

						Genomic sequence
						
							GTGTGGTCACTGCAAGAAACTTGCTCCAGAGTATGAAAAGCTAGGGGCAAGCTTCAAGAAGGCT
AAGTCTGTGTTGATTGCAAAGGTTAGTGTGATTCTATTTCGGTATTCAGCTCCAATGTTTAAAA
GATAGATGAATGATAGATTGTTTCAACTTGTGTATTGTGGTGAAGGTTGATTGTGATGAGCAAA
AGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATC
TCTTGAACCTCAAAAGTATGCTTTTTACTGTTTATTCTCTCTAAGCAGATTACTTATTTGGTGG
ATGTCTTTTGTTTATAGATAGTGAATGATTTTGTTTGTTTTTTCTGTTCATCTTATTGAATAGG
TATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAGGTATGATAG
TAGCTAAGCTTGTATCATTTCGGATTATAGATATTTACTTTTGTGGGAAACTTGTTTTAGCTTG
GTTTATGACTAAAATTTAGTTGGCGACATGTACCATCATTTGTCACTTTAGGATATATGCTCGC
CATTTGTTTCTCCCACTTGTTGTCTTTATAATTCTTCTTCGATAAATTTTGTTCCGACATACCT
CCCTATGTTGCAAACAACTGACGTATTGAACAAATATGTTTCAGGCACCAACGTAAAATTAGCT
GCAGTTCCACAAAACGTGGTTGTTTTGACACCTGACAATTTCGATGAGATTGTTCTGGATCAAA
ACAAAGATGTCCTAGTCGAATTTTATGCACCATGGTAACCATACTTGTTATCTCTCTCCTCACC
GTCATGGTTTTGCTTTCATGCTGCTATCTTCTAATATCAATTTTCCATCTTCCAGGTGTGGCCA
CTGCAAATCACTCGCTCCCGTAAGCTCAACTATCTGTTTACTCTTATTATAGATATATAGTCAT
CTATGCTTCATAACTAATGCTTTTTTCTTTGTATTATCAGACATACGAAAAGGTAGCCACAGTG
TTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGATGCTGATGCACACAAAGCCCTTGGCG
AGAAGTAAGTTGGACAGGCATTTTATTAATACCGATTTTACTGTTTAAAGTCATTTATGTTTCA
TAAAACCAAAACATAAAGACAAGTACCTTATATTCAGATATGGAGTGAGTGGATTCCCAACATT
GAAATTCTTCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGAC
TTTGTAAGCTTCATCAACGAGAAATCTGGGACCAGCAGGGACAGTAAAGGGCAGCTTACTTCAA
AGGTTCGGTAAAAACATGTCTTCTGCAGAATCACCATTTCCCACTAAAAATTGAAAACTTATGT
TGATTCTATCACACTCTCAATAGGCTGGTATAGTCGAAAGCTTAGATGCTTTGGTAAAAGAGTT
AGTTGCAGCTAGTGAAGATGAGAAGAAGGCAGTGTTGTCTCGCATAGAAGAGGAAGCAAGTACC
CTTAAGGGCTCCACCACGAG
						
					

			
		

Sequences
Splice junction sequence	CTTTGGTAAAAGAGTTAGTTGCAGCTAGTGAAGATGAGAAGAAGGCAGTGTTGTCTCGCATAGA AGAGGAAGCAAGTACCCTTAAGGGCTCCACCACGAGgtgtggtcactgcaagaaacttgctcca gagtatgaaaagctaggggcaagcttcaagaaggctaagtctgtgttgattgcaaaggttagtg tgattcta
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: 759 Transcript exons: 19481863-19481947,19482036-19482133,19482246-19482301,19 482547-19482664,19482750-19482777,19482863-19482954,1948 3052-19483208,19483294-19483418 GTGTGGTCACTGCAAGAAACTTGCTCCAGAGTATGAAAAGCTAGGGGCAAGCTTCAAGAAGGCT AAGTCTGTGTTGATTGCAAAGGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTG TTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAAGTATGAGGG TCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAGGCACCAACGTAAAATTA GCTGCAGTTCCACAAAACGTGGTTGTTTTGACACCTGACAATTTCGATGAGATTGTTCTGGATC AAAACAAAGATGTCCTAGTCGAATTTTATGCACCATGGTGTGGCCACTGCAAATCACTCGCTCC CACATACGAAAAGGTAGCCACAGTGTTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGAT GCTGATGCACACAAAGCCCTTGGCGAGAAATATGGAGTGAGTGGATTCCCAACATTGAAATTCT TCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGACTTTGTAAG CTTCATCAACGAGAAATCTGGGACCAGCAGGGACAGTAAAGGGCAGCTTACTTCAAAGGCTGGT ATAGTCGAAAGCTTAGATGCTTTGGTAAAAGAGTTAGTTGCAGCTAGTGAAGATGAGAAGAAGG CAGTGTTGTCTCGCATAGAAGAGGAAGCAAGTACCCTTAAGGGCTCCACCACGAG
Genomic sequence	GTGTGGTCACTGCAAGAAACTTGCTCCAGAGTATGAAAAGCTAGGGGCAAGCTTCAAGAAGGCT AAGTCTGTGTTGATTGCAAAGGTTAGTGTGATTCTATTTCGGTATTCAGCTCCAATGTTTAAAA GATAGATGAATGATAGATTGTTTCAACTTGTGTATTGTGGTGAAGGTTGATTGTGATGAGCAAA AGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATC TCTTGAACCTCAAAAGTATGCTTTTTACTGTTTATTCTCTCTAAGCAGATTACTTATTTGGTGG ATGTCTTTTGTTTATAGATAGTGAATGATTTTGTTTGTTTTTTCTGTTCATCTTATTGAATAGG TATGAGGGTCCACGCAATGCTGAAGCTTTGGCTGAATACGTGAACAAGGAAGGAGGTATGATAG TAGCTAAGCTTGTATCATTTCGGATTATAGATATTTACTTTTGTGGGAAACTTGTTTTAGCTTG GTTTATGACTAAAATTTAGTTGGCGACATGTACCATCATTTGTCACTTTAGGATATATGCTCGC CATTTGTTTCTCCCACTTGTTGTCTTTATAATTCTTCTTCGATAAATTTTGTTCCGACATACCT CCCTATGTTGCAAACAACTGACGTATTGAACAAATATGTTTCAGGCACCAACGTAAAATTAGCT GCAGTTCCACAAAACGTGGTTGTTTTGACACCTGACAATTTCGATGAGATTGTTCTGGATCAAA ACAAAGATGTCCTAGTCGAATTTTATGCACCATGGTAACCATACTTGTTATCTCTCTCCTCACC GTCATGGTTTTGCTTTCATGCTGCTATCTTCTAATATCAATTTTCCATCTTCCAGGTGTGGCCA CTGCAAATCACTCGCTCCCGTAAGCTCAACTATCTGTTTACTCTTATTATAGATATATAGTCAT CTATGCTTCATAACTAATGCTTTTTTCTTTGTATTATCAGACATACGAAAAGGTAGCCACAGTG TTTAAACAGGAAGAAGGTGTAGTCATCGCCAATTTGGATGCTGATGCACACAAAGCCCTTGGCG AGAAGTAAGTTGGACAGGCATTTTATTAATACCGATTTTACTGTTTAAAGTCATTTATGTTTCA TAAAACCAAAACATAAAGACAAGTACCTTATATTCAGATATGGAGTGAGTGGATTCCCAACATT GAAATTCTTCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGAC TTTGTAAGCTTCATCAACGAGAAATCTGGGACCAGCAGGGACAGTAAAGGGCAGCTTACTTCAA AGGTTCGGTAAAAACATGTCTTCTGCAGAATCACCATTTCCCACTAAAAATTGAAAACTTATGT TGATTCTATCACACTCTCAATAGGCTGGTATAGTCGAAAGCTTAGATGCTTTGGTAAAAGAGTT AGTTGCAGCTAGTGAAGATGAGAAGAAGGCAGTGTTGTCTCGCATAGAAGAGGAAGCAAGTACC CTTAAGGGCTCCACCACGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19789315

Conservation Information
Conserved circRNAs	NA
PMCS	0.19789315

			
						 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 AT2G47470_circ_g.4

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