Plant Circular RNA Database

Detail information of AT1G61150_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G61150_circ_g.2
					
						ID in PlantcircBase
						ath_circ_008263
					
						Alias
						Ath_circ_FC0839
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 22543107-22543705  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT1G61150						
					
						Parent gene annotation
						
							Protein GID8 homolog
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G61150_circ_g.3 AT1G61150_circ_g.4 AT1G61150_circ_g.5 AT1G61150_circ_g.6 AT1G61150_circ_g.7 						
					
						Support reads
						19
					
						Tissues
						leaf, aerial, inflorescences
					
						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
						AT1G61150.7:2
AT1G61150.6:3
AT1G61150.11:3
AT1G61150.9:3
AT1G61150.2:3
AT1G61150.4:3
AT1G61150.1:3
AT1G61150.8:3
AT1G61150.3:2
AT1G61150.10:3
AT1G61150.5:3

General Information
CircRNA Name	AT1G61150_circ_g.2
ID in PlantcircBase	ath_circ_008263
Alias	Ath_circ_FC0839
Organism	Arabidpsis thaliana
Position	chr1: 22543107-22543705 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT1G61150
Parent gene annotation	Protein GID8 homolog
Parent gene strand	+
Alternative splicing	AT1G61150_circ_g.3 AT1G61150_circ_g.4 AT1G61150_circ_g.5 AT1G61150_circ_g.6 AT1G61150_circ_g.7
Support reads	19
Tissues	leaf, aerial, inflorescences
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	AT1G61150.7:2 AT1G61150.6:3 AT1G61150.11:3 AT1G61150.9:3 AT1G61150.2:3 AT1G61150.4:3 AT1G61150.1:3 AT1G61150.8:3 AT1G61150.3:2 AT1G61150.10:3 AT1G61150.5:3

			
						 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  
						
							TCTTCAGCAGCAAAGGTTGATAGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTT
GCTCAGGAGGAACTTGCACCACGTGGCGAAGAAAACgctacttcgaagaaaatgatcacacgtg
aagaatgggagaagaaactaaatgctgtgaagcttaggaaagaagatatgaatactttggtgat
gaattttc

									
								

					

						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: 399
Transcript exons: 22543107-22543266,22543368-22543474,22543574-22543705
GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA
GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC
TGAGAAATTCCAAAGGGAGTCTGGAACCAAACCAGAGATAGATCTTGCGACCATTACTGATCGA
ATGGCTGTTAAAAAGGCTGTTCAAAACGGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATT
TGAATCCTGAGATACTAGACACGAATCCGGAGCTCTTTTTTCATCTTCAGCAGCAAAGGTTGAT
AGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTTGCTCAGGAGGAACTTGCACCA
CGTGGCGAAGAAAAC
Transcript length: 500
Transcript exons: 22543107-22543474,22543574-22543705
GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA
GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC
TGAGAAATTCCAAAGGGAGTCTGGAACCAAACGTATCCTTTTTCTGATTCTGGTTTTGAGTTTT
TGTTTATGGAATTGGTGTGTTTGATGTTTAGCTTATCTACTCCTTTTGAACTTCCTTATCGAGA
AACAGCAGAGATAGATCTTGCGACCATTACTGATCGAATGGCTGTTAAAAAGGCTGTTCAAAAC
GGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATTTGAATCCTGAGATACTAGACACGAATC
CGGAGCTCTTTTTTCATCTTCAGCAGCAAAGGTTGATAGAATTAATTCGACAAGGGAAGACAGA
AGAGGCCTTAGAGTTTGCTCAGGAGGAACTTGCACCACGTGGCGAAGAAAAC
						
					

						Genomic sequence
						
							GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA
GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC
TGAGAAATTCCAAAGGGAGTCTGGAACCAAACGTATCCTTTTTCTGATTCTGGTTTTGAGTTTT
TGTTTATGGAATTGGTGTGTTTGATGTTTAGCTTATCTACTCCTTTTGAACTTCCTTATCGAGA
AACAGCAGAGATAGATCTTGCGACCATTACTGATCGAATGGCTGTTAAAAAGGCTGTTCAAAAC
GGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATTTGAATCCTGAGGTACAATGCTTCTTCA
TATCTTGTGTGGAGAGTAGTCATTCACTTTTCTGATGTAATAAAGAAGCAAAATCTGATTCTTC
TTTGAACCCATGCTTGCAGATACTAGACACGAATCCGGAGCTCTTTTTTCATCTTCAGCAGCAA
AGGTTGATAGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTTGCTCAGGAGGAAC
TTGCACCACGTGGCGAAGAAAAC
						
					

			
		

Sequences
Splice junction sequence	TCTTCAGCAGCAAAGGTTGATAGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTT GCTCAGGAGGAACTTGCACCACGTGGCGAAGAAAACgctacttcgaagaaaatgatcacacgtg aagaatgggagaagaaactaaatgctgtgaagcttaggaaagaagatatgaatactttggtgat gaattttc
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: 399 Transcript exons: 22543107-22543266,22543368-22543474,22543574-22543705 GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC TGAGAAATTCCAAAGGGAGTCTGGAACCAAACCAGAGATAGATCTTGCGACCATTACTGATCGA ATGGCTGTTAAAAAGGCTGTTCAAAACGGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATT TGAATCCTGAGATACTAGACACGAATCCGGAGCTCTTTTTTCATCTTCAGCAGCAAAGGTTGAT AGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTTGCTCAGGAGGAACTTGCACCA CGTGGCGAAGAAAAC Transcript length: 500 Transcript exons: 22543107-22543474,22543574-22543705 GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC TGAGAAATTCCAAAGGGAGTCTGGAACCAAACGTATCCTTTTTCTGATTCTGGTTTTGAGTTTT TGTTTATGGAATTGGTGTGTTTGATGTTTAGCTTATCTACTCCTTTTGAACTTCCTTATCGAGA AACAGCAGAGATAGATCTTGCGACCATTACTGATCGAATGGCTGTTAAAAAGGCTGTTCAAAAC GGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATTTGAATCCTGAGATACTAGACACGAATC CGGAGCTCTTTTTTCATCTTCAGCAGCAAAGGTTGATAGAATTAATTCGACAAGGGAAGACAGA AGAGGCCTTAGAGTTTGCTCAGGAGGAACTTGCACCACGTGGCGAAGAAAAC
Genomic sequence	GCTACTTCGAAGAAAATGATCACACGTGAAGAATGGGAGAAGAAACTAAATGCTGTGAAGCTTA GGAAAGAAGATATGAATACTTTGGTGATGAATTTTCTTGTGACTGAAGGATATGTTGAAGCTGC TGAGAAATTCCAAAGGGAGTCTGGAACCAAACGTATCCTTTTTCTGATTCTGGTTTTGAGTTTT TGTTTATGGAATTGGTGTGTTTGATGTTTAGCTTATCTACTCCTTTTGAACTTCCTTATCGAGA AACAGCAGAGATAGATCTTGCGACCATTACTGATCGAATGGCTGTTAAAAAGGCTGTTCAAAAC GGAAATGTCGAGGATGCGATTGAAAAAGTTAATGATTTGAATCCTGAGGTACAATGCTTCTTCA TATCTTGTGTGGAGAGTAGTCATTCACTTTTCTGATGTAATAAAGAAGCAAAATCTGATTCTTC TTTGAACCCATGCTTGCAGATACTAGACACGAATCCGGAGCTCTTTTTTCATCTTCAGCAGCAA AGGTTGATAGAATTAATTCGACAAGGGAAGACAGAAGAGGCCTTAGAGTTTGCTCAGGAGGAAC TTGCACCACGTGGCGAAGAAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.499589713

Conservation Information
Conserved circRNAs	NA
PMCS	0.499589713

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22543122-22543702(+)
						
						Potential amino acid sequence
						
							MITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLATITDRMAVKK
AVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQEELAPRGEEN
ATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLATITDR
MAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQEELAP
RGEENATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLA
TITDRMAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQ
EELAPRGEENATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKP
EIDLATITDRMAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEA
LEFAQEELAPRGEEN(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22543122-22543702(+)
Potential amino acid sequence	MITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLATITDRMAVKK AVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQEELAPRGEEN ATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLATITDR MAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQEELAP RGEENATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKPEIDLA TITDRMAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEALEFAQ EELAPRGEENATSKKMITREEWEKKLNAVKLRKEDMNTLVMNFLVTEGYVEAAEKFQRESGTKP EIDLATITDRMAVKKAVQNGNVEDAIEKVNDLNPEILDTNPELFFHLQQQRLIELIRQGKTEEA LEFAQEELAPRGEEN(+)
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 AT1G61150_circ_g.2

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