Plant Circular RNA Database

Detail information of AT1G67120_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT1G67120_circ_g.9
					
						ID in PlantcircBase
						ath_circ_008987
					
						Alias
						1:25085351-25087419
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 25085351-25087419  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G67120						
					
						Parent gene annotation
						
							ATPases;nucleotide binding;ATP binding;nucleoside-triphosphatase
s;transcription factor binding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G67120_circ_g.8 AT1G67120_circ_g.10 AT1G67120_circ_g.11 AT1G67120_circ_g.12 AT1G67120_circ_g.13 						
					
						Support reads
						2
					
						Tissues
						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  
						
							CT-AC							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
						AT1G67120.2:7
AT1G67120.1:7

General Information
CircRNA Name	AT1G67120_circ_g.9
ID in PlantcircBase	ath_circ_008987
Alias	1:25085351-25087419
Organism	Arabidpsis thaliana
Position	chr1: 25085351-25087419 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G67120
Parent gene annotation	ATPases;nucleotide binding;ATP binding;nucleoside-triphosphatase s;transcription factor binding
Parent gene strand	-
Alternative splicing	AT1G67120_circ_g.8 AT1G67120_circ_g.10 AT1G67120_circ_g.11 AT1G67120_circ_g.12 AT1G67120_circ_g.13
Support reads	2
Tissues	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	CT-AC 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	AT1G67120.2:7 AT1G67120.1:7

			
						 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  
						
							ATGCTGGTCCTAAACTCTCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGAC
AGTAAGCGTTCTCCCAGTATGCAACCTGTTGAACCActctagaacagattgtggggcaaggttc
agttcatctaacaaaacccacgagccttcttttagagcctgtagaaattgcataattgaggatc
tgcaattt

									
								

					

						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: 723
Transcript exons: 25085351-25085416,25085490-25085579,25085662-25085762,25
085845-25085943,25086057-25086198,25086474-25086547,2508
7269-25087419
CTCTAGAACAGATTGTGGGGCAAGGTTCAGTTCATCTAACAAAACCCACGAGCCTTCTTTTAGA
GCCTGCAAGAGAATTCCATCAGACCAAGCAAACTTCATGTCCTCATCACTTTCAACTGGTAAAT
CTGATCCCAGCAAATCCATCATGTCAGTCTGCTCCGATAGATTTATGCGCACAACCTTGTGGCC
AGAATATTTTCCCAACGCCAATATCAGACTAGTTTTTCCAACACCAGGGCTACCTTCTAATAAA
ATTGGTTTTGAAAGCTGCATTGCACGCAATACTCTCAAGACATTCCTGTGGGTAGTTGGTGCTA
AAAACTCGAATCCACCAATCTCAGGATTTTCATCACCTTTGCTTATAAAAAATGGATCGATGCC
AAACATGCCCTCATGTCGAACACTCTTACTTTTTTCACAAATTGCTTTGGAATCACCCCAGCCA
TACAGCTCCATTCTTGAAAGCTCCAAAGGTAGTGTATCGCTAGCAAAAAGCTCAAGTTGTTGTA
ACAGGAAAGCGAAGCATTTTTCTCTCAGATCTTGACCATCCCTTCCAGAGAAACCAGTTCCGAG
ACTTAAACCGTCAAGTAACACGAGAAATGCTCCATGAAGAATAGCATATGCTGGTCCTAAACTC
TCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGACAGTAAGCGTTCTCCCAG
TATGCAACCTGTTGAACCA
						
					

						Genomic sequence
						
							CTCTAGAACAGATTGTGGGGCAAGGTTCAGTTCATCTAACAAAACCCACGAGCCTTCTTTTAGA
GCCTGTAGAAATTGCATAATTGAGGATCTGCAATTTTTAAATTGATACATACTTTTAGATAAAA
CAATCTTTAACCTGCAAGAGAATTCCATCAGACCAAGCAAACTTCATGTCCTCATCACTTTCAA
CTGGTAAATCTGATCCCAGCAAATCCATCATGTCAGTCTGCATCAACAAAACCATAGTTATAGT
ACCCAACAGATTAAGTAGCATACACAGTATTGAAGGCCTGGTGACGAAATCGAACCTGCTCCGA
TAGATTTATGCGCACAACCTTGTGGCCAGAATATTTTCCCAACGCCAATATCAGACTAGTTTTT
CCAACACCAGGGCTACCTTCTAATAAAACTGCAATGGTAAAATAGACCAATATTAAAGCTGACA
TCAATCTCCAAAAACTACCATGATAACCAAAAGTAATGAGACATACTTGGTTTTGAAAGCTGCA
TTGCACGCAATACTCTCAAGACATTCCTGTGGGTAGTTGGTGCTAAAAACTCGAATCCACCAAT
CTCAGGATTTTCATCACCTGAACAGGCAGGTTGTAAGTTCCAAACAAAATCTCATAAATGCTAT
AATCATAGTTGCTATACTTTGACAATATTAAACATATCCTCTGCAGAAAGAACACGAGCAGCTC
ACCTTTGCTTATAAAAAATGGATCGATGCCAAACATGCCCTCATGTCGAACACTCTTACTTTTT
TCACAAATTGCTTTGGAATCACCCCAGCCATACAGCTCCATTCTTGAAAGCTCCAAAGGTAGTG
TATCGCTAGCAAAAAGCTGAACCAGAAAAGTCAGATACTCAGATGGATGCGACATGATGAGACA
TTCGTAGTCGAACAACGAGCATCACTATGTGTTGAGGACTAAAGACGATATAAGTCACACAGTT
AAGAATTTAAAGATGCTACGAAAACGTTTTTGTTCTATAGCAAACCGAACTGATTTACTGGAAT
AACATTCAACATATGCCACTAGAGAAAACTTGGCGAGTTTGTGTTGCCAGAAAACAACAAAAAT
AAAGAGATATATTGTATCATCAAGATTGAAATTACCTCAAGTTGTTGTAACAGGAAAGCGAAGC
ATTTTTCTCTCAGATCTTGACCATCCCTTCCAGAGAAACCAGTTCCTTGCAAAACATAAAAAAA
AAAGAGGTTAATCAATCATACACGCTGGGTAAAGATATATGAAAGCAATACCACTCAAACTCAG
CTAATGAAGATGAAATACCAATAAAGTTGGATATCCTAAACTCAGTAAATCCAACGACAGAAAC
TACATAACACAAGTTGTAGATTCAGCTAGTGAAGATGGAATACCATTATATTCGAATACCCAAT
TCAACAAATTACATGAAACGATATTTGCATGAATTTATATAACAAACGATCAAGGTAGACCTAT
TCAAACTTTTAGATGTTTGATATATTCCAGTGTACTTATATCATTACGTCAAAGACAGACCAGT
CAAAAAATGTAAGACTGTAGATGACAAAGGCATTTATAAAAGCAATCAATCTAAGAAGCAGCTA
GAGAACCTAACGAATATGTTTTACTGGACCACCAGGCAAAGAGCATCTTTTCATAGGGATGTGA
GGGAATCACTAGAGCATAAGCTACAGTGAAACACCCGGCCACAGATATACACGACTAATTTTAT
TACCATGTTTTTGGACATCGAGAAGTTCAAAAAACCACATTGTTCATACCAGAATGCAATCAAA
TAAACAGAAAGCTCCCCAGTGCAGATAAAAAATGGTTACAGAAGGGAAGAATAAGAGTTGAATA
AGTGAGTATAGCAATAACACTTCAAACCTAGACAGAAAGATTAGAATTACGGAAAAACATACCG
AGACTTAAACCGTCAAGTAACACGAGAAATGCTCCATGAAGAATAGCATATGCTGGTCCTAAAC
TCTCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGACAGTAAGCGTTCTCCC
AGTATGCAACCTGTTGAACCA
						
					

			
		

Sequences
Splice junction sequence	ATGCTGGTCCTAAACTCTCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGAC AGTAAGCGTTCTCCCAGTATGCAACCTGTTGAACCActctagaacagattgtggggcaaggttc agttcatctaacaaaacccacgagccttcttttagagcctgtagaaattgcataattgaggatc tgcaattt
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: 723 Transcript exons: 25085351-25085416,25085490-25085579,25085662-25085762,25 085845-25085943,25086057-25086198,25086474-25086547,2508 7269-25087419 CTCTAGAACAGATTGTGGGGCAAGGTTCAGTTCATCTAACAAAACCCACGAGCCTTCTTTTAGA GCCTGCAAGAGAATTCCATCAGACCAAGCAAACTTCATGTCCTCATCACTTTCAACTGGTAAAT CTGATCCCAGCAAATCCATCATGTCAGTCTGCTCCGATAGATTTATGCGCACAACCTTGTGGCC AGAATATTTTCCCAACGCCAATATCAGACTAGTTTTTCCAACACCAGGGCTACCTTCTAATAAA ATTGGTTTTGAAAGCTGCATTGCACGCAATACTCTCAAGACATTCCTGTGGGTAGTTGGTGCTA AAAACTCGAATCCACCAATCTCAGGATTTTCATCACCTTTGCTTATAAAAAATGGATCGATGCC AAACATGCCCTCATGTCGAACACTCTTACTTTTTTCACAAATTGCTTTGGAATCACCCCAGCCA TACAGCTCCATTCTTGAAAGCTCCAAAGGTAGTGTATCGCTAGCAAAAAGCTCAAGTTGTTGTA ACAGGAAAGCGAAGCATTTTTCTCTCAGATCTTGACCATCCCTTCCAGAGAAACCAGTTCCGAG ACTTAAACCGTCAAGTAACACGAGAAATGCTCCATGAAGAATAGCATATGCTGGTCCTAAACTC TCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGACAGTAAGCGTTCTCCCAG TATGCAACCTGTTGAACCA
Genomic sequence	CTCTAGAACAGATTGTGGGGCAAGGTTCAGTTCATCTAACAAAACCCACGAGCCTTCTTTTAGA GCCTGTAGAAATTGCATAATTGAGGATCTGCAATTTTTAAATTGATACATACTTTTAGATAAAA CAATCTTTAACCTGCAAGAGAATTCCATCAGACCAAGCAAACTTCATGTCCTCATCACTTTCAA CTGGTAAATCTGATCCCAGCAAATCCATCATGTCAGTCTGCATCAACAAAACCATAGTTATAGT ACCCAACAGATTAAGTAGCATACACAGTATTGAAGGCCTGGTGACGAAATCGAACCTGCTCCGA TAGATTTATGCGCACAACCTTGTGGCCAGAATATTTTCCCAACGCCAATATCAGACTAGTTTTT CCAACACCAGGGCTACCTTCTAATAAAACTGCAATGGTAAAATAGACCAATATTAAAGCTGACA TCAATCTCCAAAAACTACCATGATAACCAAAAGTAATGAGACATACTTGGTTTTGAAAGCTGCA TTGCACGCAATACTCTCAAGACATTCCTGTGGGTAGTTGGTGCTAAAAACTCGAATCCACCAAT CTCAGGATTTTCATCACCTGAACAGGCAGGTTGTAAGTTCCAAACAAAATCTCATAAATGCTAT AATCATAGTTGCTATACTTTGACAATATTAAACATATCCTCTGCAGAAAGAACACGAGCAGCTC ACCTTTGCTTATAAAAAATGGATCGATGCCAAACATGCCCTCATGTCGAACACTCTTACTTTTT TCACAAATTGCTTTGGAATCACCCCAGCCATACAGCTCCATTCTTGAAAGCTCCAAAGGTAGTG TATCGCTAGCAAAAAGCTGAACCAGAAAAGTCAGATACTCAGATGGATGCGACATGATGAGACA TTCGTAGTCGAACAACGAGCATCACTATGTGTTGAGGACTAAAGACGATATAAGTCACACAGTT AAGAATTTAAAGATGCTACGAAAACGTTTTTGTTCTATAGCAAACCGAACTGATTTACTGGAAT AACATTCAACATATGCCACTAGAGAAAACTTGGCGAGTTTGTGTTGCCAGAAAACAACAAAAAT AAAGAGATATATTGTATCATCAAGATTGAAATTACCTCAAGTTGTTGTAACAGGAAAGCGAAGC ATTTTTCTCTCAGATCTTGACCATCCCTTCCAGAGAAACCAGTTCCTTGCAAAACATAAAAAAA AAAGAGGTTAATCAATCATACACGCTGGGTAAAGATATATGAAAGCAATACCACTCAAACTCAG CTAATGAAGATGAAATACCAATAAAGTTGGATATCCTAAACTCAGTAAATCCAACGACAGAAAC TACATAACACAAGTTGTAGATTCAGCTAGTGAAGATGGAATACCATTATATTCGAATACCCAAT TCAACAAATTACATGAAACGATATTTGCATGAATTTATATAACAAACGATCAAGGTAGACCTAT TCAAACTTTTAGATGTTTGATATATTCCAGTGTACTTATATCATTACGTCAAAGACAGACCAGT CAAAAAATGTAAGACTGTAGATGACAAAGGCATTTATAAAAGCAATCAATCTAAGAAGCAGCTA GAGAACCTAACGAATATGTTTTACTGGACCACCAGGCAAAGAGCATCTTTTCATAGGGATGTGA GGGAATCACTAGAGCATAAGCTACAGTGAAACACCCGGCCACAGATATACACGACTAATTTTAT TACCATGTTTTTGGACATCGAGAAGTTCAAAAAACCACATTGTTCATACCAGAATGCAATCAAA TAAACAGAAAGCTCCCCAGTGCAGATAAAAAATGGTTACAGAAGGGAAGAATAAGAGTTGAATA AGTGAGTATAGCAATAACACTTCAAACCTAGACAGAAAGATTAGAATTACGGAAAAACATACCG AGACTTAAACCGTCAAGTAACACGAGAAATGCTCCATGAAGAATAGCATATGCTGGTCCTAAAC TCTCAGTTGCCATGTTGACAAATGCAACCCAGGAGAGGAGATCTCTGACAGTAAGCGTTCTCCC AGTATGCAACCTGTTGAACCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.161444936

Conservation Information
Conserved circRNAs	NA
PMCS	0.161444936

			
						 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 AT1G67120_circ_g.9

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