Plant Circular RNA Database

Detail information of AT5G59710_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G59710_circ_g.1
					
						ID in PlantcircBase
						ath_circ_044867
					
						Alias
						5:24058085-24059956
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24058085-24059956  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G59710						
					
						Parent gene annotation
						
							Probable NOT transcription complex subunit VIP2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G59710_circ_g.2 AT5G59710_circ_g.3 AT5G59710_circ_g.4 AT5G59710_circ_g.5 AT5G59710_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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
						AT5G59710.1:6
AT5G59710.3:6
AT5G59710.2:6

General Information
CircRNA Name	AT5G59710_circ_g.1
ID in PlantcircBase	ath_circ_044867
Alias	5:24058085-24059956
Organism	Arabidpsis thaliana
Position	chr5: 24058085-24059956 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G59710
Parent gene annotation	Probable NOT transcription complex subunit VIP2
Parent gene strand	+
Alternative splicing	AT5G59710_circ_g.2 AT5G59710_circ_g.3 AT5G59710_circ_g.4 AT5G59710_circ_g.5 AT5G59710_circ_g.6
Support reads	2
Tissues	seedling
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	AT5G59710.1:6 AT5G59710.3:6 AT5G59710.2:6

			
						 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  
						
							GGCTCTTTGAGGAAACAAGGTTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCC
AAAATGAAGACTTTCCTGCCCTTCCTGGATATAAAGattgtaggcggtttcgcgtcttgtcacc
gaatgatacattgtctcacgtgagattgtcagtcagttagtgcaatgtcaaaccttcatgtacc
ttcctatt

									
								

					

						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: 1042
Transcript exons: 24058085-24058171,24058280-24058388,24058471-24058649,24
058731-24059103,24059547-24059741,24059858-24059956
ATTGTAGGCGGTTTCGCGTCTTGTCACCGAATGATACATTGTCTCACGTGAGATTGTCAGTCAG
TTAGTGCAATGTCAAACCTTCATTCATCTCTCAATGGTTCAGCTTCGAATTTACCAGATGGTTC
GGGCAGATCGTTTACTGCTTCTTATTCTGGACAATCTGGTGCACCGTCTCCCTCTTTTCATCAT
ACTGGAAATCTTCAGGGACTTCATAATATTCATGGGAACTATAATGTCGGGAACATGCAAGGTA
CACTTACATCAAGAAACTCAAGTATGAATAGTATACCATCTGCCGGAGTTCAACAACCTAATGG
GAGTTTTTCCAGTGGAAGATTTGCTTCAAATAATCTACCTGTTAATCTCTCTCAGTTGTCCCAT
GGTAGCTCACATGGGCATTCGGGAATCCCAAATAGAGGTCTTAATGTTGTTGGCAACCCTGGAT
TCAGTAGTAACGCTAATGGAGTTGGTGGTTCTATTCCTGGAATTCTCTCTACATCTGCAGGACT
CAGTAATCGGAATAGTGTTCCAGGGATGGGAATATCCCAATTGTTGGGAAATTCAGGTCCTCGA
ATAACAAATTCAATGGGAAACATGGTTGGTGGAGGTAACTTGGGGAGGAATATTAGCTCTGGTG
GATTGTCTATTCCTGGTCTGTCTTCACGACTAAATTTGGCAGCAAATAGCGGATCAGGATTAAA
TGTTCAGGGACAGAACCGAATGATGGGTGGAGTACTTCCTCAAGGATCTCAGGTCATGTCTATG
CTGGGGAACTCCTATCATACTGGTGGTGGCCCGCTTTCGCAGAATCATGTTCAGTCAGTTAACA
ATATGATGCTCAGTGATCATCCTAACGACAGCTCTCTATTTGACATCAACAACGATTTTCCCCA
GCTGACAAGTCGTCCTGGGTCTGCTGGTGGCACTCAAGGACATCTAGGCTCTTTGAGGAAACAA
GGTTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCCAAAATGAAGACTTTCCTG
CCCTTCCTGGATATAAAG
						
					

						Genomic sequence
						
							ATTGTAGGCGGTTTCGCGTCTTGTCACCGAATGATACATTGTCTCACGTGAGATTGTCAGTCAG
TTAGTGCAATGTCAAACCTTCATGTACCTTCCTATTCACCTTGAGAATATTTTTAGTGTGCTTA
GGATAACGTTTGCTTAATTATGCGTACCATTTCTCATCCATCAACTCTTGTGCTCTTTCCTTTG
TAGTCATCTCTCAATGGTTCAGCTTCGAATTTACCAGATGGTTCGGGCAGATCGTTTACTGCTT
CTTATTCTGGACAATCTGGTGCACCGTCTCCCTCTTTTCATCATACTGGTGGGTGTTATTCTTA
TCTTGACCTTCTTCTATATTTTGCGTCGTTCTGAACTTATATAACTTCTACATATTCTTCATGC
AGGAAATCTTCAGGGACTTCATAATATTCATGGGAACTATAATGTCGGGAACATGCAAGGTACA
CTTACATCAAGAAACTCAAGTATGAATAGTATACCATCTGCCGGAGTTCAACAACCTAATGGGA
GTTTTTCCAGTGGAAGATTTGCTTCAAATAATCTACCTGTTAATCTCTCTCAGGTGCATGTTGT
TTAAAATTTTGTGAAAAAACGGCTCTTGTTCTTAATCTGTGTCTTATATTATACGATGATTGCT
TTGTAGTTGTCCCATGGTAGCTCACATGGGCATTCGGGAATCCCAAATAGAGGTCTTAATGTTG
TTGGCAACCCTGGATTCAGTAGTAACGCTAATGGAGTTGGTGGTTCTATTCCTGGAATTCTCTC
TACATCTGCAGGACTCAGTAATCGGAATAGTGTTCCAGGGATGGGAATATCCCAATTGTTGGGA
AATTCAGGTCCTCGAATAACAAATTCAATGGGAAACATGGTTGGTGGAGGTAACTTGGGGAGGA
ATATTAGCTCTGGTGGATTGTCTATTCCTGGTCTGTCTTCACGACTAAATTTGGCAGCAAATAG
CGGATCAGGATTAAATGTTCAGGGACAGAACCGAATGATGGGTGGAGTACTTCCTCAAGGTATA
TATGATTTATCGAGTCCTTTCCATTTGCTGTCTTCAAGGTTTTTTTTGCCTTTCATTTGATACA
ACTGAGCCGAGCCTTGTTTAACTTCTTGTTATAGCATTGTAAATAAAATAGAATATATTGCTTC
ATGGAGTACACCTTTTTACTGGTCTAGTAGCTAGGAGGTCCTGTGGAAAATAAGTTAGAATAAT
TAGTCATTTAGGGGGTAGGATTGATATCAGCAGTTGAACTTGTTTTGCTTTTGTAGTCTATACT
TCTCTAGACTCACGTGAGTACGTTAGAATGTAGAGAAAGCAGTACTCTGGGATTGTTTGGACTT
TGTAAGACGAGCTTGTTTACTTTACACAAAATCTTATTTAATTAAACATGCAATTAGTTAGCAG
CTGCTGTATGTGGAAATAGCAGTAAAAATTTAATTGTAAAATTGTATGGTACAGGATCTCAGGT
CATGTCTATGCTGGGGAACTCCTATCATACTGGTGGTGGCCCGCTTTCGCAGAATCATGTTCAG
TCAGTTAACAATATGATGCTCAGTGATCATCCTAACGACAGCTCTCTATTTGACATCAACAACG
ATTTTCCCCAGCTGACAAGTCGTCCTGGGTCTGCTGGTGGCACTCAAGGACATCTAGGTAGTCG
GTTTATCTGAAGATCTTTTGAAATTCATATACTTAATATAACATAAGTTTTTGAAAAGATTTTC
CAAATCATGTCTTGTTTCCTCATACTCTTGCGGTGGTGTTTTTAGGCTCTTTGAGGAAACAAGG
TTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCCAAAATGAAGACTTTCCTGCC
CTTCCTGGATATAAAG
						
					

			
		

Sequences
Splice junction sequence	GGCTCTTTGAGGAAACAAGGTTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCC AAAATGAAGACTTTCCTGCCCTTCCTGGATATAAAGattgtaggcggtttcgcgtcttgtcacc gaatgatacattgtctcacgtgagattgtcagtcagttagtgcaatgtcaaaccttcatgtacc ttcctatt
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: 1042 Transcript exons: 24058085-24058171,24058280-24058388,24058471-24058649,24 058731-24059103,24059547-24059741,24059858-24059956 ATTGTAGGCGGTTTCGCGTCTTGTCACCGAATGATACATTGTCTCACGTGAGATTGTCAGTCAG TTAGTGCAATGTCAAACCTTCATTCATCTCTCAATGGTTCAGCTTCGAATTTACCAGATGGTTC GGGCAGATCGTTTACTGCTTCTTATTCTGGACAATCTGGTGCACCGTCTCCCTCTTTTCATCAT ACTGGAAATCTTCAGGGACTTCATAATATTCATGGGAACTATAATGTCGGGAACATGCAAGGTA CACTTACATCAAGAAACTCAAGTATGAATAGTATACCATCTGCCGGAGTTCAACAACCTAATGG GAGTTTTTCCAGTGGAAGATTTGCTTCAAATAATCTACCTGTTAATCTCTCTCAGTTGTCCCAT GGTAGCTCACATGGGCATTCGGGAATCCCAAATAGAGGTCTTAATGTTGTTGGCAACCCTGGAT TCAGTAGTAACGCTAATGGAGTTGGTGGTTCTATTCCTGGAATTCTCTCTACATCTGCAGGACT CAGTAATCGGAATAGTGTTCCAGGGATGGGAATATCCCAATTGTTGGGAAATTCAGGTCCTCGA ATAACAAATTCAATGGGAAACATGGTTGGTGGAGGTAACTTGGGGAGGAATATTAGCTCTGGTG GATTGTCTATTCCTGGTCTGTCTTCACGACTAAATTTGGCAGCAAATAGCGGATCAGGATTAAA TGTTCAGGGACAGAACCGAATGATGGGTGGAGTACTTCCTCAAGGATCTCAGGTCATGTCTATG CTGGGGAACTCCTATCATACTGGTGGTGGCCCGCTTTCGCAGAATCATGTTCAGTCAGTTAACA ATATGATGCTCAGTGATCATCCTAACGACAGCTCTCTATTTGACATCAACAACGATTTTCCCCA GCTGACAAGTCGTCCTGGGTCTGCTGGTGGCACTCAAGGACATCTAGGCTCTTTGAGGAAACAA GGTTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCCAAAATGAAGACTTTCCTG CCCTTCCTGGATATAAAG
Genomic sequence	ATTGTAGGCGGTTTCGCGTCTTGTCACCGAATGATACATTGTCTCACGTGAGATTGTCAGTCAG TTAGTGCAATGTCAAACCTTCATGTACCTTCCTATTCACCTTGAGAATATTTTTAGTGTGCTTA GGATAACGTTTGCTTAATTATGCGTACCATTTCTCATCCATCAACTCTTGTGCTCTTTCCTTTG TAGTCATCTCTCAATGGTTCAGCTTCGAATTTACCAGATGGTTCGGGCAGATCGTTTACTGCTT CTTATTCTGGACAATCTGGTGCACCGTCTCCCTCTTTTCATCATACTGGTGGGTGTTATTCTTA TCTTGACCTTCTTCTATATTTTGCGTCGTTCTGAACTTATATAACTTCTACATATTCTTCATGC AGGAAATCTTCAGGGACTTCATAATATTCATGGGAACTATAATGTCGGGAACATGCAAGGTACA CTTACATCAAGAAACTCAAGTATGAATAGTATACCATCTGCCGGAGTTCAACAACCTAATGGGA GTTTTTCCAGTGGAAGATTTGCTTCAAATAATCTACCTGTTAATCTCTCTCAGGTGCATGTTGT TTAAAATTTTGTGAAAAAACGGCTCTTGTTCTTAATCTGTGTCTTATATTATACGATGATTGCT TTGTAGTTGTCCCATGGTAGCTCACATGGGCATTCGGGAATCCCAAATAGAGGTCTTAATGTTG TTGGCAACCCTGGATTCAGTAGTAACGCTAATGGAGTTGGTGGTTCTATTCCTGGAATTCTCTC TACATCTGCAGGACTCAGTAATCGGAATAGTGTTCCAGGGATGGGAATATCCCAATTGTTGGGA AATTCAGGTCCTCGAATAACAAATTCAATGGGAAACATGGTTGGTGGAGGTAACTTGGGGAGGA ATATTAGCTCTGGTGGATTGTCTATTCCTGGTCTGTCTTCACGACTAAATTTGGCAGCAAATAG CGGATCAGGATTAAATGTTCAGGGACAGAACCGAATGATGGGTGGAGTACTTCCTCAAGGTATA TATGATTTATCGAGTCCTTTCCATTTGCTGTCTTCAAGGTTTTTTTTGCCTTTCATTTGATACA ACTGAGCCGAGCCTTGTTTAACTTCTTGTTATAGCATTGTAAATAAAATAGAATATATTGCTTC ATGGAGTACACCTTTTTACTGGTCTAGTAGCTAGGAGGTCCTGTGGAAAATAAGTTAGAATAAT TAGTCATTTAGGGGGTAGGATTGATATCAGCAGTTGAACTTGTTTTGCTTTTGTAGTCTATACT TCTCTAGACTCACGTGAGTACGTTAGAATGTAGAGAAAGCAGTACTCTGGGATTGTTTGGACTT TGTAAGACGAGCTTGTTTACTTTACACAAAATCTTATTTAATTAAACATGCAATTAGTTAGCAG CTGCTGTATGTGGAAATAGCAGTAAAAATTTAATTGTAAAATTGTATGGTACAGGATCTCAGGT CATGTCTATGCTGGGGAACTCCTATCATACTGGTGGTGGCCCGCTTTCGCAGAATCATGTTCAG TCAGTTAACAATATGATGCTCAGTGATCATCCTAACGACAGCTCTCTATTTGACATCAACAACG ATTTTCCCCAGCTGACAAGTCGTCCTGGGTCTGCTGGTGGCACTCAAGGACATCTAGGTAGTCG GTTTATCTGAAGATCTTTTGAAATTCATATACTTAATATAACATAAGTTTTTGAAAAGATTTTC CAAATCATGTCTTGTTTCCTCATACTCTTGCGGTGGTGTTTTTAGGCTCTTTGAGGAAACAAGG TTTAGGAGTTCCACTTGTCCAACAAAACCAGGAGTTCAGCATCCAAAATGAAGACTTTCCTGCC CTTCCTGGATATAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.219971327

Conservation Information
Conserved circRNAs	NA
PMCS	0.219971327

			
						 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 AT5G59710_circ_g.1

Address

Any questions?

Supported by