Plant Circular RNA Database

Detail information of AT1G11000_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G11000_circ_g.2
					
						ID in PlantcircBase
						ath_circ_002055
					
						Alias
						Ath_circ_FC0303, AT1G11000_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 3674466-3675958  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI, circRNA_finder, CIRI2
					
						Parent gene
						
							AT1G11000						
					
						Parent gene annotation
						
							MLO-like protein 4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G11000_circ_g.1 						
					
						Support reads
						3
					
						Tissues
						root, inflorescences, whole_plant, leaf
					
						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
						AT1G11000.2:5
AT1G11000.3:5
AT1G11000.1:5

General Information
CircRNA Name	AT1G11000_circ_g.2
ID in PlantcircBase	ath_circ_002055
Alias	Ath_circ_FC0303, AT1G11000_C1
Organism	Arabidpsis thaliana
Position	chr1: 3674466-3675958 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRI, circRNA_finder, CIRI2
Parent gene	AT1G11000
Parent gene annotation	MLO-like protein 4
Parent gene strand	-
Alternative splicing	AT1G11000_circ_g.1
Support reads	3
Tissues	root, inflorescences, whole_plant, leaf
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	AT1G11000.2:5 AT1G11000.3:5 AT1G11000.1:5

			
						 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  
						
							GTAAGTCGGCGTCTCTGCAAGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAA
CTTTTCTCCCGAGAAAAATGGAGAATCAATCTGCATcgtggatatctgattcagccattatgat
cgcttgggcttcccattttctccaactgtaaatctgtgttacgtgataaaaagacaacactgtt
tcagatgg

									
								

					

						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: 196
Transcript exons: 3674466-3674508,3675806-3675958
CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCACGTTCAACGAGAAAGCAAACA
AAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCAAGAGACCTTCCTT
CTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAATGGAGAATCAATCT
GCAT
Transcript length: 209
Transcript exons: 3674466-3674519,3675804-3675958
CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACCGCGTTCAAC
GAGAAAGCAAACAAAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCA
AGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAAT
GGAGAATCAATCTGCAT
Transcript length: 632
Transcript exons: 3674466-3674526,3674840-3674956,3675048-3675268,3675358-
3675415,3675784-3675958
CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACTGTAAATCTT
GCTCATGGCTAAACCAATGGCAATGCCACTGTATAGAACATGAGTGATACCCAGGACGAATAAG
AATCTTAGGAGTTGCTCGAGTCCCTCATACGACACAAATGGTTCACGGCCATGACCACATTGAT
GAGAGGCTTCATGTATTCCATGATGAGGTAAGGAGCTCTGGTTTGTAGAAGAGGTGTGTTCCAG
AAGAACTTTCTTATGGATTCCATAGTCCTCTTCAGAGCAAATGTAGAATTTACTATTGAAAAGG
GAAGAGTTAACACAGATTTCTGAAATCCATCTCGCGCTTTGTGACAACAGAAGTGATATAAGTC
CCAGCAACATCAACTCCTCTTTCATTTTCTCAAGTGAAGTAAAAAGTGCCTTTCTTCTAGTCTT
CTTTAACCACTTTCCAAATCTGTAAATGGCGCGTTCAACGAGAAAGCAAACAAAGACCAAAACA
GTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCAAGAGACCTTCCTTCTTTCATCATAT
GCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAATGGAGAATCAATCTGCAT
						
					

						Genomic sequence
						
							CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACTGTAAATCTG
TGTTACGTGATAAAAAGACAACACTGTTTCAGATGGTATTGATATGTTCGTCTGCTTAATCTTA
CTAACACTCTATGCACATAAATGATAATATCGAAGGTTTTCCCTCAATTTTCAGATTGAAGATA
ATTTCTATTTGACATATACTTAGGACCACTAATTATTTGATCATGAGGTTCTCTACATCCTCTA
GACATGAGGATAAAGTTGATTGCAAGTATAATACATCTCTTCCTTTCGGAGCAACATAGAAATA
CTTAAGAATACAAATTTAACACTCATATGTAGATTTAGGAGCTAGGATGTGTACCTTGCTCATG
GCTAAACCAATGGCAATGCCACTGTATAGAACATGAGTGATACCCAGGACGAATAAGAATCTTA
GGAGTTGCTCGAGTCCCTCATACGACACAAATGGTTCACGGCCCTGGCATTGGATCCAACATCC
AGTTCAGTAATATAATTAAAAGTCAAAAGGAAAATAGGCTCTTAAGTCGATAGAAAAAGTAAAT
ATTTACATGACCACATTGATGAGAGGCTTCATGTATTCCATGATGAGGTAAGGAGCTCTGGTTT
GTAGAAGAGGTGTGTTCCAGAAGAACTTTCTTATGGATTCCATAGTCCTCTTCAGAGCAAATGT
AGAATTTACTATTGAAAAGGGAAGAGTTAACACAGATTTCTGAAATCCATCTCGCGCTTTGTGA
CAACAGAAGTGATATAAGTCCCAGCAACATCAACTCTACCAAGAAAGTTTAACAAGTCAAAATC
AAACGAAAAAGAAAGAAAGTATAAAGCACCACAACATCAGCACAGGTTTATTTGACATACCCTC
TTTCATTTTCTCAAGTGAAGTAAAAAGTGCCTTTCTTCTAGTCTTCTTTAACCACTGAAAACAA
AACAGAACATGAAATTAGCTCCTCATATATATCTAACATGAAAGACACATCCTGTAATAATGAC
TTCTCTTAGAGTGAAAACATCAACACTACTTCTACTGACATTTAGCAAGCATAAACACATATCT
CCAAGAAGAAACATCTCGTCCATAAAAATTCTCACTTTCTAGCACCCATTATTAGATAAAACAT
TTCCAGCTCATGAATCATGGAGAGCAAGAGTTAACCCAAGTGGCAAGTGTGCAGAAAAAAAAAA
AAAATCATAATACGTTCTTCACACTCATTCTTTTGAGCTGAGCATTTCAACAAACATATAGTAG
GCACACACACGAAGAAAAAATACAAAACAAAAACACACCTTTCCAAATCTGTAAATGGCGCGTT
CAACGAGAAAGCAAACAAAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTC
TGCAAGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAA
AAATGGAGAATCAATCTGCAT
						
					

			
		

Sequences
Splice junction sequence	GTAAGTCGGCGTCTCTGCAAGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAA CTTTTCTCCCGAGAAAAATGGAGAATCAATCTGCATcgtggatatctgattcagccattatgat cgcttgggcttcccattttctccaactgtaaatctgtgttacgtgataaaaagacaacactgtt tcagatgg
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: 196 Transcript exons: 3674466-3674508,3675806-3675958 CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCACGTTCAACGAGAAAGCAAACA AAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCAAGAGACCTTCCTT CTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAATGGAGAATCAATCT GCAT Transcript length: 209 Transcript exons: 3674466-3674519,3675804-3675958 CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACCGCGTTCAAC GAGAAAGCAAACAAAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCA AGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAAT GGAGAATCAATCTGCAT Transcript length: 632 Transcript exons: 3674466-3674526,3674840-3674956,3675048-3675268,3675358- 3675415,3675784-3675958 CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACTGTAAATCTT GCTCATGGCTAAACCAATGGCAATGCCACTGTATAGAACATGAGTGATACCCAGGACGAATAAG AATCTTAGGAGTTGCTCGAGTCCCTCATACGACACAAATGGTTCACGGCCATGACCACATTGAT GAGAGGCTTCATGTATTCCATGATGAGGTAAGGAGCTCTGGTTTGTAGAAGAGGTGTGTTCCAG AAGAACTTTCTTATGGATTCCATAGTCCTCTTCAGAGCAAATGTAGAATTTACTATTGAAAAGG GAAGAGTTAACACAGATTTCTGAAATCCATCTCGCGCTTTGTGACAACAGAAGTGATATAAGTC CCAGCAACATCAACTCCTCTTTCATTTTCTCAAGTGAAGTAAAAAGTGCCTTTCTTCTAGTCTT CTTTAACCACTTTCCAAATCTGTAAATGGCGCGTTCAACGAGAAAGCAAACAAAGACCAAAACA GTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTCTGCAAGAGACCTTCCTTCTTTCATCATAT GCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAAAAATGGAGAATCAATCTGCAT
Genomic sequence	CGTGGATATCTGATTCAGCCATTATGATCGCTTGGGCTTCCCATTTTCTCCAACTGTAAATCTG TGTTACGTGATAAAAAGACAACACTGTTTCAGATGGTATTGATATGTTCGTCTGCTTAATCTTA CTAACACTCTATGCACATAAATGATAATATCGAAGGTTTTCCCTCAATTTTCAGATTGAAGATA ATTTCTATTTGACATATACTTAGGACCACTAATTATTTGATCATGAGGTTCTCTACATCCTCTA GACATGAGGATAAAGTTGATTGCAAGTATAATACATCTCTTCCTTTCGGAGCAACATAGAAATA CTTAAGAATACAAATTTAACACTCATATGTAGATTTAGGAGCTAGGATGTGTACCTTGCTCATG GCTAAACCAATGGCAATGCCACTGTATAGAACATGAGTGATACCCAGGACGAATAAGAATCTTA GGAGTTGCTCGAGTCCCTCATACGACACAAATGGTTCACGGCCCTGGCATTGGATCCAACATCC AGTTCAGTAATATAATTAAAAGTCAAAAGGAAAATAGGCTCTTAAGTCGATAGAAAAAGTAAAT ATTTACATGACCACATTGATGAGAGGCTTCATGTATTCCATGATGAGGTAAGGAGCTCTGGTTT GTAGAAGAGGTGTGTTCCAGAAGAACTTTCTTATGGATTCCATAGTCCTCTTCAGAGCAAATGT AGAATTTACTATTGAAAAGGGAAGAGTTAACACAGATTTCTGAAATCCATCTCGCGCTTTGTGA CAACAGAAGTGATATAAGTCCCAGCAACATCAACTCTACCAAGAAAGTTTAACAAGTCAAAATC AAACGAAAAAGAAAGAAAGTATAAAGCACCACAACATCAGCACAGGTTTATTTGACATACCCTC TTTCATTTTCTCAAGTGAAGTAAAAAGTGCCTTTCTTCTAGTCTTCTTTAACCACTGAAAACAA AACAGAACATGAAATTAGCTCCTCATATATATCTAACATGAAAGACACATCCTGTAATAATGAC TTCTCTTAGAGTGAAAACATCAACACTACTTCTACTGACATTTAGCAAGCATAAACACATATCT CCAAGAAGAAACATCTCGTCCATAAAAATTCTCACTTTCTAGCACCCATTATTAGATAAAACAT TTCCAGCTCATGAATCATGGAGAGCAAGAGTTAACCCAAGTGGCAAGTGTGCAGAAAAAAAAAA AAAATCATAATACGTTCTTCACACTCATTCTTTTGAGCTGAGCATTTCAACAAACATATAGTAG GCACACACACGAAGAAAAAATACAAAACAAAAACACACCTTTCCAAATCTGTAAATGGCGCGTT CAACGAGAAAGCAAACAAAGACCAAAACAGTAACAACCGAAGCAACAGAGTAAGTCGGCGTCTC TGCAAGAGACCTTCCTTCTTTCATCATATGCTCCATCTCCGGCGAGGAACTTTTCTCCCGAGAA AAATGGAGAATCAATCTGCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.431474662

Conservation Information
Conserved circRNAs	NA
PMCS	0.431474662

			
						 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
						response to drought stress

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	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT1G11000_circ_g.2

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