Plant Circular RNA Database

Detail information of AT5G11860_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G11860_circ_g.1
					
						ID in PlantcircBase
						ath_circ_037701
					
						Alias
						5:3822028-3823665
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 3822028-3823665  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G11860						
					
						Parent gene annotation
						
							At5g11860
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G11860_circ_g.2 AT5G11860_circ_g.3 						
					
						Support reads
						2/1/1
					
						Tissues
						seedling;flower
					
						Exon boundary  
						
							No-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
						AT5G11860.2:4
AT5G11860.1:4
AT5G11860.5:4
AT5G11860.3:4
AT5G11860.4:4

General Information
CircRNA Name	AT5G11860_circ_g.1
ID in PlantcircBase	ath_circ_037701
Alias	5:3822028-3823665
Organism	Arabidpsis thaliana
Position	chr5: 3822028-3823665 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G11860
Parent gene annotation	At5g11860
Parent gene strand	-
Alternative splicing	AT5G11860_circ_g.2 AT5G11860_circ_g.3
Support reads	2/1/1
Tissues	seedling;flower
Exon boundary	No-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	AT5G11860.2:4 AT5G11860.1:4 AT5G11860.5:4 AT5G11860.3:4 AT5G11860.4:4

			
						 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  
						
							AAACTCTCTTCACTCCTGTAGCTACCGACAAAGCAGAGACACCGGAGATAGATCAGTTCCCGAG
AGCCGTCAAATTACAAACAACTAGCTCATACACTATctttcgaaaggatctcccgcctcagcag
gatattcaggtgcggctacagctgcatcaatcttctcccttagattgaatttcttggcgatcat
tggcctta

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTTTCGAAAGGATCTCCCGCCTCAGCAGGATATTCAGGTGCGGCTACAGCTGCATCAATCTTCT
CCCTTAGATTGAATTTCTTGGCGATCATTGGCCTTACATCTTCAACTCCAATTAGGCTTTCAAG
AAATGGCAGCAAGTGAAGGAGTTCTTTATCTGATGGGTCATTAAACCAGCTCTCTATTGGCACT
CCATTTTCCACTTGGAAACCAAATGCCTAAAACATTGCAGAAAAAGAAAAACACCAATGAGATT
GTGCAACAGCCTTAGATCGAGCTTAGAGAATTCTTAATGGCGGTTCTGGAATCAACTTCTTTTC
ATCAACCCTACAAAACCAATGAGATAGCTTTTGCAAACAAAGAACTTCTACTGGATTCGCCCAT
ACTACCTTTCATAGTTATTATAGTTTTCCTATACTAGAAGTGTATCCTACAATTATAGCTGATA
AAAGCATCTATCGATCGGTTTAGGTATAAAGCATAAGAATGGAGAACTAAACGTGTTTACTCAC
TGTGTAGAAGGATAATAAGAGTATAATACCTGTGGGGAGTTATCAACAATGATAACACGAGATA
AATCACGCCCGAGGACTGACAAATCCTTGAGGTAGTTACCATCAAAGAAAACACACGAGTCACG
GTACACTCTATGGCGAAAGAGCTTTCTCTTAGGGTCAAGCACGTTCAGAAGTTGCTCAGCATAA
ATACTTTGGCTAGCTGTAAATATAATGATCTCAAAAAGTCGGGACACTCTCTCCATAAACTCTT
TGAGGTGAGGACGGCATCGCACATACACCATATGCTCTTCTTCATTAAAATTCACTGGGAATGT
GAAATCTACCTCACCACACGGCTCTAGAGTCGAGTGCACAAGAGTTTCTGCAAAATAAAACATA
TATGTTATAGTAGCCTTAAAACCTGGTGAGAAAAAACTAAGATTTGTGTGCCATTAAAACCTGC
AAAGAGAGATACAATTTTAAACAAACGAATCAACTGAAAAGTAGCCTTACCATCAAGGTCTAGG
ACAAGAGAAATAGGAGGACAGCTTCGGGTTTGTTTAGGAAGCAAGACCGGCCTGAAAGTTGGGA
CAACAGAAGACAGGTTCGGCAAGTTCTTGATAAACAGATAAGGATCAAACTCATCGAGCTCCTC
ATCCTCTTCATCCTCCATGCATACCGAAGTAATAAGGGAATCTTGACCACGCTCGTCAACACAT
TCCAGCTTAGAGCTCTTCATCGCTAGATAAATGGCAGAAACCGAATCCAAGTTACAATTTGGAT
CTACGGTACTTGTATCTAGAGCAAGCAATCGATCATAAGGGTTCTGTGCATCCAAATCCCGAGA
AGAAGGAGAGTCATCATCTTCCATTAAAACCCTATTAACATCAACTTGTAACTGAATTAGACAA
CAGAACTCAGAGCCTAATGCAACTACTCCACAATTTCAATATCTGACCATTATTCACATTCATA
CCCAAACACTACTATAAATCTACAAGTACAAGGTTCAATGATAAAGTTTTCAAATTTACCTTGT
AGAAACTCTCTTCACTCCTGTAGCTACCGACAAAGCAGAGACACCGGAGATAGATCAGTTCCCG
AGAGCCGTCAAATTACAAACAACTAGCTCATACACTAT
						
					

			
		

Sequences
Splice junction sequence	AAACTCTCTTCACTCCTGTAGCTACCGACAAAGCAGAGACACCGGAGATAGATCAGTTCCCGAG AGCCGTCAAATTACAAACAACTAGCTCATACACTATctttcgaaaggatctcccgcctcagcag gatattcaggtgcggctacagctgcatcaatcttctcccttagattgaatttcttggcgatcat tggcctta
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTTTCGAAAGGATCTCCCGCCTCAGCAGGATATTCAGGTGCGGCTACAGCTGCATCAATCTTCT CCCTTAGATTGAATTTCTTGGCGATCATTGGCCTTACATCTTCAACTCCAATTAGGCTTTCAAG AAATGGCAGCAAGTGAAGGAGTTCTTTATCTGATGGGTCATTAAACCAGCTCTCTATTGGCACT CCATTTTCCACTTGGAAACCAAATGCCTAAAACATTGCAGAAAAAGAAAAACACCAATGAGATT GTGCAACAGCCTTAGATCGAGCTTAGAGAATTCTTAATGGCGGTTCTGGAATCAACTTCTTTTC ATCAACCCTACAAAACCAATGAGATAGCTTTTGCAAACAAAGAACTTCTACTGGATTCGCCCAT ACTACCTTTCATAGTTATTATAGTTTTCCTATACTAGAAGTGTATCCTACAATTATAGCTGATA AAAGCATCTATCGATCGGTTTAGGTATAAAGCATAAGAATGGAGAACTAAACGTGTTTACTCAC TGTGTAGAAGGATAATAAGAGTATAATACCTGTGGGGAGTTATCAACAATGATAACACGAGATA AATCACGCCCGAGGACTGACAAATCCTTGAGGTAGTTACCATCAAAGAAAACACACGAGTCACG GTACACTCTATGGCGAAAGAGCTTTCTCTTAGGGTCAAGCACGTTCAGAAGTTGCTCAGCATAA ATACTTTGGCTAGCTGTAAATATAATGATCTCAAAAAGTCGGGACACTCTCTCCATAAACTCTT TGAGGTGAGGACGGCATCGCACATACACCATATGCTCTTCTTCATTAAAATTCACTGGGAATGT GAAATCTACCTCACCACACGGCTCTAGAGTCGAGTGCACAAGAGTTTCTGCAAAATAAAACATA TATGTTATAGTAGCCTTAAAACCTGGTGAGAAAAAACTAAGATTTGTGTGCCATTAAAACCTGC AAAGAGAGATACAATTTTAAACAAACGAATCAACTGAAAAGTAGCCTTACCATCAAGGTCTAGG ACAAGAGAAATAGGAGGACAGCTTCGGGTTTGTTTAGGAAGCAAGACCGGCCTGAAAGTTGGGA CAACAGAAGACAGGTTCGGCAAGTTCTTGATAAACAGATAAGGATCAAACTCATCGAGCTCCTC ATCCTCTTCATCCTCCATGCATACCGAAGTAATAAGGGAATCTTGACCACGCTCGTCAACACAT TCCAGCTTAGAGCTCTTCATCGCTAGATAAATGGCAGAAACCGAATCCAAGTTACAATTTGGAT CTACGGTACTTGTATCTAGAGCAAGCAATCGATCATAAGGGTTCTGTGCATCCAAATCCCGAGA AGAAGGAGAGTCATCATCTTCCATTAAAACCCTATTAACATCAACTTGTAACTGAATTAGACAA CAGAACTCAGAGCCTAATGCAACTACTCCACAATTTCAATATCTGACCATTATTCACATTCATA CCCAAACACTACTATAAATCTACAAGTACAAGGTTCAATGATAAAGTTTTCAAATTTACCTTGT AGAAACTCTCTTCACTCCTGTAGCTACCGACAAAGCAGAGACACCGGAGATAGATCAGTTCCCG AGAGCCGTCAAATTACAAACAACTAGCTCATACACTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.33376733

Conservation Information
Conserved circRNAs	NA
PMCS	0.33376733

			
						 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 AT5G11860_circ_g.1

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