Plant Circular RNA Database

Detail information of AT4G32330_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT4G32330_circ_g.3
					
						ID in PlantcircBase
						ath_circ_034020
					
						Alias
						Ath_circ_FC2920, Ath_circ_FC2921
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15609790-15611305  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT4G32330						
					
						Parent gene annotation
						
							Protein WVD2-like 5
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G32330_circ_g.1 AT4G32330_circ_g.2 AT4G32330_circ_g.4 AT4G32330_circ_g.5 AT4G32330_circ_g.6 AT4G32330_circ_g.7 AT4G32330_circ_g.8 						
					
						Support reads
						13
					
						Tissues
						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  
						
							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
						AT4G32330.4:7
AT4G32330.2:7
AT4G32330.3:7
AT4G32330.1:7

General Information
CircRNA Name	AT4G32330_circ_g.3
ID in PlantcircBase	ath_circ_034020
Alias	Ath_circ_FC2920, Ath_circ_FC2921
Organism	Arabidpsis thaliana
Position	chr4: 15609790-15611305 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	PcircRNA_finder
Parent gene	AT4G32330
Parent gene annotation	Protein WVD2-like 5
Parent gene strand	+
Alternative splicing	AT4G32330_circ_g.1 AT4G32330_circ_g.2 AT4G32330_circ_g.4 AT4G32330_circ_g.5 AT4G32330_circ_g.6 AT4G32330_circ_g.7 AT4G32330_circ_g.8
Support reads	13
Tissues	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	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	AT4G32330.4:7 AT4G32330.2:7 AT4G32330.3:7 AT4G32330.1:7

			
						 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  
						
							AGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTAT
CAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAGtttactatactatggaccctgagagtat
catggctgctgatgggactgattctgctcctgcaaatggtggtttagcaatggaaaatgtatgt
gttaaaga

									
								

					

						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: 445
Transcript exons: 15609790-15609920,15610084-15610173,15610180-15610299,15
611202-15611305
TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA
TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG
GACAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGGCGAAAAAGCTCAACG
GAAGCCAAGGCATGAGAAACTATCAGGTGATAATTCATCGGTTCACATCAAAAAGAGCAAAGAG
GGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTGTTGCTCCTAATGTACAGACAA
CAAATCCTCTTAAGAGCAAATAAGAAGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAA
AGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAG
Transcript length: 851
Transcript exons: 15609790-15610001,15610086-15610331,15610444-15610484,15
610668-15610739,15610860-15610956,15611039-15611110,1561
1195-15611305
TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA
TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG
GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC
ACGTCAAGGAGGCAGCTGAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGG
CGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTGGTAAGAATAATTCATCGGTT
CACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTG
TTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACA
AGTCACAAAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGGAGAAGGTGAAA
CCAAAGTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAATCCGA
AAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATG
TGACCAACGGGCTGAAAAGAGAAAAGAGTTCTATGTTAAGCTTGAGGAGAAGACTCATGCAAAA
GAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGAAACACAAGAAGCTGAGCTTAGGATGC
TAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCCGCC
TAAAACAGAGTTAAAGAAG
Transcript length: 854
Transcript exons: 15609790-15610001,15610086-15610331,15610444-15610484,15
610668-15610739,15610857-15610956,15611039-15611110,1561
1195-15611305
TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA
TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG
GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC
ACGTCAAGGAGGCAGCTGAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGG
CGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTGGTAAGAATAATTCATCGGTT
CACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTG
TTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACA
AGTCACAAAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGGAGAAGGTGAAA
CCAAAGTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAATAGTC
CGAAAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAA
ATGTGACCAACGGGCTGAAAAGAGAAAAGAGTTCTATGTTAAGCTTGAGGAGAAGACTCATGCA
AAAGAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGAAACACAAGAAGCTGAGCTTAGGA
TGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCC
GCCTAAAACAGAGTTAAAGAAG
						
					

						Genomic sequence
						
							TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA
TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG
GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC
ACGTCAAGGAGGCAGCTGAGGTTTGTAACTATGGATGGTCAATCTACTTGCCTGTCGGATAAAA
TAGTTGTGACTAACATTTGTGTTTTCCCCTTTTATGGTAGGGCACACAAGTTGAACATGTAGAT
GATTCAAAGTGTATGAAAGGCGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTG
GTAAGAATAATTCATCGGTTCACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGT
GGCAGCATCAAATGGTTCTGTTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCA
TTCAATGGGCGAGAGGCACAAGTCACAAAGGTAATCATCCCTCACAATTTGCTTCTAGGTTTCT
TCGCTTTAGCTTATGCATATTTGGATGTGATCTTCTTTCTGGCTGATGATTATTGTTGATCTCT
TCTTTTTCCTTCAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGTATTGAGT
CCTTTTTTTAGAAATCAGAGTTTCTTTCCATATGGTCTTCTTACGGGTTCACTGCTAGAACCCA
AAACATTTGTCAATAAATGTCATCTAGACCTTGGTGCTAAGTATTGTCATTTATCTGTTAGTTC
CTAATCAATCATTGAAACTGGAAGTTTTATTCCCTTTTTGATACAGGGAGAAGGTGAAACCAAA
GTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAAGTATTTCTTT
CACCTTTATATTTACCATCTCGTCTTTCTTGTGGAAAGCTGGGGCCTTTCTTCATTTGCCTCTC
ATTTTTGCGTTTATGTTGATAAAATAACTTGATGGTTTCTTAGTAGTCCGAAAGCAGACGATGG
AAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATGTGACCAACGGGCT
GAAAAGAGAAAAGAGGTTAGCATTCTGGTTCACTAGATTGTCCTCTCGCCACAAAAATAATTAC
ATGTAATCATATATCTGCTTTCATATGGTGCAGTTCTATGTTAAGCTTGAGGAGAAGACTCATG
CAAAAGAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGTTGTCTCCTATACCCACCCTGT
TTATTGTCATAGTGTTTAGATGCTTGGCCTCCTCCAAAACAAAATTCTTGGTTTCTCGCAGGAA
ACACAAGAAGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTA
GCTTTTATCAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAG
						
					

			
		

Sequences
Splice junction sequence	AGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTAT CAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAGtttactatactatggaccctgagagtat catggctgctgatgggactgattctgctcctgcaaatggtggtttagcaatggaaaatgtatgt gttaaaga
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: 445 Transcript exons: 15609790-15609920,15610084-15610173,15610180-15610299,15 611202-15611305 TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG GACAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGGCGAAAAAGCTCAACG GAAGCCAAGGCATGAGAAACTATCAGGTGATAATTCATCGGTTCACATCAAAAAGAGCAAAGAG GGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTGTTGCTCCTAATGTACAGACAA CAAATCCTCTTAAGAGCAAATAAGAAGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAA AGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAG Transcript length: 851 Transcript exons: 15609790-15610001,15610086-15610331,15610444-15610484,15 610668-15610739,15610860-15610956,15611039-15611110,1561 1195-15611305 TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC ACGTCAAGGAGGCAGCTGAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGG CGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTGGTAAGAATAATTCATCGGTT CACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTG TTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACA AGTCACAAAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGGAGAAGGTGAAA CCAAAGTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAATCCGA AAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATG TGACCAACGGGCTGAAAAGAGAAAAGAGTTCTATGTTAAGCTTGAGGAGAAGACTCATGCAAAA GAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGAAACACAAGAAGCTGAGCTTAGGATGC TAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCCGCC TAAAACAGAGTTAAAGAAG Transcript length: 854 Transcript exons: 15609790-15610001,15610086-15610331,15610444-15610484,15 610668-15610739,15610857-15610956,15611039-15611110,1561 1195-15611305 TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC ACGTCAAGGAGGCAGCTGAGGGCACACAAGTTGAACATGTAGATGATTCAAAGTGTATGAAAGG CGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTGGTAAGAATAATTCATCGGTT CACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGTGGCAGCATCAAATGGTTCTG TTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCATTCAATGGGCGAGAGGCACA AGTCACAAAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGGAGAAGGTGAAA CCAAAGTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAATAGTC CGAAAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAA ATGTGACCAACGGGCTGAAAAGAGAAAAGAGTTCTATGTTAAGCTTGAGGAGAAGACTCATGCA AAAGAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGAAACACAAGAAGCTGAGCTTAGGA TGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTAGCTTTTATCAAGAACCTCAGCC GCCTAAAACAGAGTTAAAGAAG
Genomic sequence	TTTACTATACTATGGACCCTGAGAGTATCATGGCTGCTGATGGGACTGATTCTGCTCCTGCAAA TGGTGGTTTAGCAATGGAAAATGTATGTGTTAAAGAAAATGGGGCTGTTTCTGTCGAAACCGTG GACACTACTTCAGAAAGTCAGAATGAGAATTCGGCAAACAGTTCCACTTTGGATACAATTGAAC ACGTCAAGGAGGCAGCTGAGGTTTGTAACTATGGATGGTCAATCTACTTGCCTGTCGGATAAAA TAGTTGTGACTAACATTTGTGTTTTCCCCTTTTATGGTAGGGCACACAAGTTGAACATGTAGAT GATTCAAAGTGTATGAAAGGCGAAAAAGCTCAACGGAAGCCAAGGCATGAGAAACTATCAGGTG GTAAGAATAATTCATCGGTTCACATCAAAAAGAGCAAAGAGGGCAAAAGTGCAGATGCTAAAGT GGCAGCATCAAATGGTTCTGTTGCTCCTAATGTACAGACAACAAATCCTCTTAAGAGCAAATCA TTCAATGGGCGAGAGGCACAAGTCACAAAGGTAATCATCCCTCACAATTTGCTTCTAGGTTTCT TCGCTTTAGCTTATGCATATTTGGATGTGATCTTCTTTCTGGCTGATGATTATTGTTGATCTCT TCTTTTTCCTTCAGCAAGGGAAGCATGACTCTGCACCTGCTGAAAGCGCTGATGGGTATTGAGT CCTTTTTTTAGAAATCAGAGTTTCTTTCCATATGGTCTTCTTACGGGTTCACTGCTAGAACCCA AAACATTTGTCAATAAATGTCATCTAGACCTTGGTGCTAAGTATTGTCATTTATCTGTTAGTTC CTAATCAATCATTGAAACTGGAAGTTTTATTCCCTTTTTGATACAGGGAGAAGGTGAAACCAAA GTCTCAAAAGAAACAAGCCCATGAGACATCTGAAGATGATACTCAGTCTTCTAAGTATTTCTTT CACCTTTATATTTACCATCTCGTCTTTCTTGTGGAAAGCTGGGGCCTTTCTTCATTTGCCTCTC ATTTTTGCGTTTATGTTGATAAAATAACTTGATGGTTTCTTAGTAGTCCGAAAGCAGACGATGG AAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATGTGACCAACGGGCT GAAAAGAGAAAAGAGGTTAGCATTCTGGTTCACTAGATTGTCCTCTCGCCACAAAAATAATTAC ATGTAATCATATATCTGCTTTCATATGGTGCAGTTCTATGTTAAGCTTGAGGAGAAGACTCATG CAAAAGAAGAGGAAATTAATAGCATGCAAGCCAAGTCCAAGGTTGTCTCCTATACCCACCCTGT TTATTGTCATAGTGTTTAGATGCTTGGCCTCCTCCAAAACAAAATTCTTGGTTTCTCGCAGGAA ACACAAGAAGCTGAGCTTAGGATGCTAAGGAAGAGTTTGAACTTCAAAGCCACACCTATGCCTA GCTTTTATCAAGAACCTCAGCCGCCTAAAACAGAGTTAAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.222630669

Conservation Information
Conserved circRNAs	NA
PMCS	0.222630669

			
						 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
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT4G32330_circ_g.3

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