Plant Circular RNA Database

Detail information of AT2G43160_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT2G43160_circ_g.3
					
						ID in PlantcircBase
						ath_circ_018097
					
						Alias
						2:17949482-17951279
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17949482-17951279  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G43160						
					
						Parent gene annotation
						
							Clathrin interactor EPSIN 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G43160_circ_g.1 AT2G43160_circ_g.2 AT2G43160_circ_g.4 AT2G43160_circ_g.5 AT2G43160_circ_g.6 AT2G43160_circ_g.7 AT2G43160_circ_g.8 AT2G43160_circ_g.9 AT2G43160_circ_g.10 AT2G43160_circ_g.11 AT2G43160_circ_g.12 AT2G43160_circ_g.13 						
					
						Support reads
						1/1
					
						Tissues
						seedling;root
					
						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
						AT2G43160.5:7
AT2G43160.4:7
AT2G43160.1:7
AT2G43160.2:7
AT2G43160.3:7

General Information
CircRNA Name	AT2G43160_circ_g.3
ID in PlantcircBase	ath_circ_018097
Alias	2:17949482-17951279
Organism	Arabidpsis thaliana
Position	chr2: 17949482-17951279 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G43160
Parent gene annotation	Clathrin interactor EPSIN 2
Parent gene strand	+
Alternative splicing	AT2G43160_circ_g.1 AT2G43160_circ_g.2 AT2G43160_circ_g.4 AT2G43160_circ_g.5 AT2G43160_circ_g.6 AT2G43160_circ_g.7 AT2G43160_circ_g.8 AT2G43160_circ_g.9 AT2G43160_circ_g.10 AT2G43160_circ_g.11 AT2G43160_circ_g.12 AT2G43160_circ_g.13
Support reads	1/1
Tissues	seedling;root
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	AT2G43160.5:7 AT2G43160.4:7 AT2G43160.1:7 AT2G43160.2:7 AT2G43160.3:7

			
						 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  
						
							GGAACCAACACAGCCAATACAACTGCTACTTTTGTTAATGAATCACCTTCTCAGAAAGTTGAGA
CTTTCGATGAATTTGATCCACGCAGTGCGTTTTCAGtcatgaatatcagctgatcatggtggtc
atatggaaacgccttagcgacaccggaaaaaactggcggcatgtctataaggtaaacaatatta
ttgtcttg

									
								

					

						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: 947
Transcript exons: 17949482-17949560,17949660-17949743,17949862-17950007,17
950275-17950577,17950784-17950825,17950914-17951012,1795
1086-17951279
TCATGAATATCAGCTGATCATGGTGGTCATATGGAAACGCCTTAGCGACACCGGAAAAAACTGG
CGGCATGTCTATAAGGCTTTGACAGTTTTGGAGTACATGGTAGGCCATGGATCAGAACGTGTTA
TAGACGAGATTAGAGAACGTGCATATCAAATTTCGACATTGTCCGATTTTCAGTATATTGATTC
CGGTGGTAGAGATCAAGGAAGCAATGTTAGGAAGAAATCACAGAGCCTGGTGGCTTTGGTGAAT
GACAAGGAAAGAATAGCTGAAGTCAGACAGAAGGCTGCTGCTAATAGAGATAAGTATCGCAGCT
CAGCACCAGGTGGGATGTATAAGCCTTCAGGCGGATATGGGGATAAATATGATTACGGAAGCCG
GGATGAAGAGCGAAGTAGTTATGGAAGAGAAAGAGAATATGGTTACAGAGATGATGATAGAAAT
AGTCGTGATGGAGATCGTCATTCCAGGGACTCTGAAGACCGGTATGGGAGAGATGGTAATAGGG
ATGATGATTACAGGGGAAGGAGCAGAAGTGTTGATAACTATGGGTCACGAGGTAGGAGTTCGGA
AAGAGAGCGGGAGGATGATGGCCATTCTTCATCACGGGGCAGTGGTGCTCGAGCTGATGATAAT
TCTCAGGATGGGAGAGGGGGGCTCCAGAGGAAGTTTTCTGAACAAAATATTGGCGCTCCACCCA
GTTATGAAGAAGCTGTCAGTGATTCACGCAGCCCTGTATATAGTGAAAGGGATGGTGGGGAGAC
CCCACAAGTTACCGCTCCAGGAGCTGCTTCTCCTCCTCCCCCACAAGTTGCTGCTCCAGAGGCT
GCTTCTCCTCCAACTGGAACCAACACAGCCAATACAACTGCTACTTTTGTTAATGAATCACCTT
CTCAGAAAGTTGAGACTTTCGATGAATTTGATCCACGCAGTGCGTTTTCAG
						
					

						Genomic sequence
						
							TCATGAATATCAGCTGATCATGGTGGTCATATGGAAACGCCTTAGCGACACCGGAAAAAACTGG
CGGCATGTCTATAAGGTAAACAATATTATTGTCTTGCTGGCTTAATTTGTGTTGAATTTCTGTA
GCAGTGACTAAAGTATTTCATGCTGTTTACCTCTTCTCTCTCCCCTTCAGGCTTTGACAGTTTT
GGAGTACATGGTAGGCCATGGATCAGAACGTGTTATAGACGAGATTAGAGAACGTGCATATCAA
ATTTCGGTAATGACTACCTTGAGTACATTATTTTGGAAGTATTCAACATCAAGAGAATCCTTTA
GTGCTATATCTCAGTAGTTGACTATCTTACTTGTATATATGTCTATTTTCCTTGTGGCAGACAT
TGTCCGATTTTCAGTATATTGATTCCGGTGGTAGAGATCAAGGAAGCAATGTTAGGAAGAAATC
ACAGAGCCTGGTGGCTTTGGTGAATGACAAGGAAAGAATAGCTGAAGTCAGACAGAAGGCTGCT
GCTAATAGAGATAAGTAAGTTTGCTTGTCATTGTATCTTTCTGGAACTGGTGGATAGTTTTCTC
TCTGTGTGAGTCTCGGTGGACACTCGTTTGATTTCTTGTTGCTAGTGGCTTACAATTGTTATTA
TGCTTCTCGGTAGTCTATTAATTGGTAGTACTGGCACTTTAACTGTATTAGCTTCTGAATTTTG
AAAGTTTTTATCTCGAGAAAAAAAAATGACATGTCTTTTGGTTCATTCAAAATATGCTGAACAT
ATCAACCTACATTATTTTACAACAGGTATCGCAGCTCAGCACCAGGTGGGATGTATAAGCCTTC
AGGCGGATATGGGGATAAATATGATTACGGAAGCCGGGATGAAGAGCGAAGTAGTTATGGAAGA
GAAAGAGAATATGGTTACAGAGATGATGATAGAAATAGTCGTGATGGAGATCGTCATTCCAGGG
ACTCTGAAGACCGGTATGGGAGAGATGGTAATAGGGATGATGATTACAGGGGAAGGAGCAGAAG
TGTTGATAACTATGGGTCACGAGGTAGGAGTTCGGAAAGAGAGCGGGAGGATGATGGCCATTCT
TCATCACGGTATGTTAAATTTCAAGTCGCCTAAATCCTGAAATAAAAAAGGAAGGGGAAAATTT
TGAAGATTATCAACTCCATTTGGATAGAATATTTTTATTTTGAATACTAGCGTAGATGTCCTTG
ATTTTAAAAATCATTTCGAACCGCAATCTTCTTAGTCTAGTTCCATTTTCAAATTTTAAATGGA
TACACTCCTTTTTGTCCTGTAGGGGCAGTGGTGCTCGAGCTGATGATAATTCTCAGGATGGGAG
GTAATTTCTGATAAATTTCTACTGAAGTTTAGGCATTCTTTTATTGTATGACAACTCATCTCAC
CTTCTTTCGGGATTATAATGGTAGAGGGGGGCTCCAGAGGAAGTTTTCTGAACAAAATATTGGC
GCTCCACCCAGTTATGAAGAAGCTGTCAGTGATTCACGCAGCCCTGTATATAGTGAAAGGTGAT
CATTTTCTGCTTTGAAAATTGAAAGCTACCTTGGTTTTTATTGGTGCTGATGAATCTTTCTATG
CCAGGGATGGTGGGGAGACCCCACAAGTTACCGCTCCAGGAGCTGCTTCTCCTCCTCCCCCACA
AGTTGCTGCTCCAGAGGCTGCTTCTCCTCCAACTGGAACCAACACAGCCAATACAACTGCTACT
TTTGTTAATGAATCACCTTCTCAGAAAGTTGAGACTTTCGATGAATTTGATCCACGCAGTGCGT
TTTCAG
						
					

			
		

Sequences
Splice junction sequence	GGAACCAACACAGCCAATACAACTGCTACTTTTGTTAATGAATCACCTTCTCAGAAAGTTGAGA CTTTCGATGAATTTGATCCACGCAGTGCGTTTTCAGtcatgaatatcagctgatcatggtggtc atatggaaacgccttagcgacaccggaaaaaactggcggcatgtctataaggtaaacaatatta ttgtcttg
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: 947 Transcript exons: 17949482-17949560,17949660-17949743,17949862-17950007,17 950275-17950577,17950784-17950825,17950914-17951012,1795 1086-17951279 TCATGAATATCAGCTGATCATGGTGGTCATATGGAAACGCCTTAGCGACACCGGAAAAAACTGG CGGCATGTCTATAAGGCTTTGACAGTTTTGGAGTACATGGTAGGCCATGGATCAGAACGTGTTA TAGACGAGATTAGAGAACGTGCATATCAAATTTCGACATTGTCCGATTTTCAGTATATTGATTC CGGTGGTAGAGATCAAGGAAGCAATGTTAGGAAGAAATCACAGAGCCTGGTGGCTTTGGTGAAT GACAAGGAAAGAATAGCTGAAGTCAGACAGAAGGCTGCTGCTAATAGAGATAAGTATCGCAGCT CAGCACCAGGTGGGATGTATAAGCCTTCAGGCGGATATGGGGATAAATATGATTACGGAAGCCG GGATGAAGAGCGAAGTAGTTATGGAAGAGAAAGAGAATATGGTTACAGAGATGATGATAGAAAT AGTCGTGATGGAGATCGTCATTCCAGGGACTCTGAAGACCGGTATGGGAGAGATGGTAATAGGG ATGATGATTACAGGGGAAGGAGCAGAAGTGTTGATAACTATGGGTCACGAGGTAGGAGTTCGGA AAGAGAGCGGGAGGATGATGGCCATTCTTCATCACGGGGCAGTGGTGCTCGAGCTGATGATAAT TCTCAGGATGGGAGAGGGGGGCTCCAGAGGAAGTTTTCTGAACAAAATATTGGCGCTCCACCCA GTTATGAAGAAGCTGTCAGTGATTCACGCAGCCCTGTATATAGTGAAAGGGATGGTGGGGAGAC CCCACAAGTTACCGCTCCAGGAGCTGCTTCTCCTCCTCCCCCACAAGTTGCTGCTCCAGAGGCT GCTTCTCCTCCAACTGGAACCAACACAGCCAATACAACTGCTACTTTTGTTAATGAATCACCTT CTCAGAAAGTTGAGACTTTCGATGAATTTGATCCACGCAGTGCGTTTTCAG
Genomic sequence	TCATGAATATCAGCTGATCATGGTGGTCATATGGAAACGCCTTAGCGACACCGGAAAAAACTGG CGGCATGTCTATAAGGTAAACAATATTATTGTCTTGCTGGCTTAATTTGTGTTGAATTTCTGTA GCAGTGACTAAAGTATTTCATGCTGTTTACCTCTTCTCTCTCCCCTTCAGGCTTTGACAGTTTT GGAGTACATGGTAGGCCATGGATCAGAACGTGTTATAGACGAGATTAGAGAACGTGCATATCAA ATTTCGGTAATGACTACCTTGAGTACATTATTTTGGAAGTATTCAACATCAAGAGAATCCTTTA GTGCTATATCTCAGTAGTTGACTATCTTACTTGTATATATGTCTATTTTCCTTGTGGCAGACAT TGTCCGATTTTCAGTATATTGATTCCGGTGGTAGAGATCAAGGAAGCAATGTTAGGAAGAAATC ACAGAGCCTGGTGGCTTTGGTGAATGACAAGGAAAGAATAGCTGAAGTCAGACAGAAGGCTGCT GCTAATAGAGATAAGTAAGTTTGCTTGTCATTGTATCTTTCTGGAACTGGTGGATAGTTTTCTC TCTGTGTGAGTCTCGGTGGACACTCGTTTGATTTCTTGTTGCTAGTGGCTTACAATTGTTATTA TGCTTCTCGGTAGTCTATTAATTGGTAGTACTGGCACTTTAACTGTATTAGCTTCTGAATTTTG AAAGTTTTTATCTCGAGAAAAAAAAATGACATGTCTTTTGGTTCATTCAAAATATGCTGAACAT ATCAACCTACATTATTTTACAACAGGTATCGCAGCTCAGCACCAGGTGGGATGTATAAGCCTTC AGGCGGATATGGGGATAAATATGATTACGGAAGCCGGGATGAAGAGCGAAGTAGTTATGGAAGA GAAAGAGAATATGGTTACAGAGATGATGATAGAAATAGTCGTGATGGAGATCGTCATTCCAGGG ACTCTGAAGACCGGTATGGGAGAGATGGTAATAGGGATGATGATTACAGGGGAAGGAGCAGAAG TGTTGATAACTATGGGTCACGAGGTAGGAGTTCGGAAAGAGAGCGGGAGGATGATGGCCATTCT TCATCACGGTATGTTAAATTTCAAGTCGCCTAAATCCTGAAATAAAAAAGGAAGGGGAAAATTT TGAAGATTATCAACTCCATTTGGATAGAATATTTTTATTTTGAATACTAGCGTAGATGTCCTTG ATTTTAAAAATCATTTCGAACCGCAATCTTCTTAGTCTAGTTCCATTTTCAAATTTTAAATGGA TACACTCCTTTTTGTCCTGTAGGGGCAGTGGTGCTCGAGCTGATGATAATTCTCAGGATGGGAG GTAATTTCTGATAAATTTCTACTGAAGTTTAGGCATTCTTTTATTGTATGACAACTCATCTCAC CTTCTTTCGGGATTATAATGGTAGAGGGGGGCTCCAGAGGAAGTTTTCTGAACAAAATATTGGC GCTCCACCCAGTTATGAAGAAGCTGTCAGTGATTCACGCAGCCCTGTATATAGTGAAAGGTGAT CATTTTCTGCTTTGAAAATTGAAAGCTACCTTGGTTTTTATTGGTGCTGATGAATCTTTCTATG CCAGGGATGGTGGGGAGACCCCACAAGTTACCGCTCCAGGAGCTGCTTCTCCTCCTCCCCCACA AGTTGCTGCTCCAGAGGCTGCTTCTCCTCCAACTGGAACCAACACAGCCAATACAACTGCTACT TTTGTTAATGAATCACCTTCTCAGAAAGTTGAGACTTTCGATGAATTTGATCCACGCAGTGCGT TTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.26731787

Conservation Information
Conserved circRNAs	NA
PMCS	0.26731787

			
						 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 AT2G43160_circ_g.3

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