Plant Circular RNA Database

Detail information of AT5G53860_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT5G53860_circ_g.8
					
						ID in PlantcircBase
						ath_circ_043999
					
						Alias
						5:21866433-21868394
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 21866433-21868394  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G53860						
					
						Parent gene annotation
						
							Embryo defective 2737
							
						Parent gene strand
						+
					
						Alternative splicing
						
							ENSRNA049493778_circ_g.1 ENSRNA049493778_circ_g.2 AT5G53740_circ_g.1 5_circ_ag.2 5_circ_ag.3 AT5G53740_circ_g.4 AT5G53740_circ_g.5 5_circ_ag.6 AT5G53760_circ_g.1 AT5G53770_circ_g.1 AT5G53770_circ_g.2 5_circ_ig.3 AT5G53850_circ_g.1 AT5G53850_circ_g.2 AT5G53850_circ_g.3 AT5G53850_circ_g.4 AT5G53850_circ_g.5 AT5G53860_circ_g.1 AT5G53860_circ_g.2 AT5G53860_circ_g.3 AT5G53860_circ_g.4 AT5G53860_circ_g.5 AT5G53860_circ_g.6 AT5G53860_circ_g.7 AT5G53860_circ_g.9 AT5G53860_circ_g.10 AT5G53860_circ_g.11 AT5G53880_circ_g.1 AT5G53905_circ_g.1 5_circ_ag.2 AT5G53905_circ_g.3 5_circ_ag.4 AT5G53920_circ_g.1 AT5G53940_circ_g.1 AT5G53940_circ_g.2 AT5G53970_circ_g.1 AT5G53970_circ_g.2 AT5G54000_circ_g.1 AT5G54060_circ_g.1 ENSRNA049493776_circ_g.1 ENSRNA049493776_circ_g.2 ENSRNA049493776_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6 AT5G54080_circ_g.1 AT5G54080_circ_g.2 AT5G54080_circ_g.3 AT5G54080_circ_g.4 AT5G54090_circ_g.1 AT5G54090_circ_g.2 AT5G54090_circ_g.3 AT5G54090_circ_g.4 AT5G54100_circ_g.1 AT5G54130_circ_g.1 AT5G54130_circ_g.2 AT5G54130_circ_g.3 AT5G54130_circ_g.4 AT5G54130_circ_g.5 AT5G54160_circ_g.1 AT5G54160_circ_g.2 AT5G54170_circ_g.1 ENSRNA049493783_circ_g.1 ENSRNA049493783_circ_g.2 ENSRNA049493783_circ_g.3 ENSRNA049493783_circ_g.4 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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  
						
							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
						AT5G53860.5:8
AT5G53860.4:9
AT5G53860.1:7
AT5G53860.3:7
AT5G53860.2:8

General Information
CircRNA Name	AT5G53860_circ_g.8
ID in PlantcircBase	ath_circ_043999
Alias	5:21866433-21868394
Organism	Arabidpsis thaliana
Position	chr5: 21866433-21868394 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G53860
Parent gene annotation	Embryo defective 2737
Parent gene strand	+
Alternative splicing	ENSRNA049493778_circ_g.1 ENSRNA049493778_circ_g.2 AT5G53740_circ_g.1 5_circ_ag.2 5_circ_ag.3 AT5G53740_circ_g.4 AT5G53740_circ_g.5 5_circ_ag.6 AT5G53760_circ_g.1 AT5G53770_circ_g.1 AT5G53770_circ_g.2 5_circ_ig.3 AT5G53850_circ_g.1 AT5G53850_circ_g.2 AT5G53850_circ_g.3 AT5G53850_circ_g.4 AT5G53850_circ_g.5 AT5G53860_circ_g.1 AT5G53860_circ_g.2 AT5G53860_circ_g.3 AT5G53860_circ_g.4 AT5G53860_circ_g.5 AT5G53860_circ_g.6 AT5G53860_circ_g.7 AT5G53860_circ_g.9 AT5G53860_circ_g.10 AT5G53860_circ_g.11 AT5G53880_circ_g.1 AT5G53905_circ_g.1 5_circ_ag.2 AT5G53905_circ_g.3 5_circ_ag.4 AT5G53920_circ_g.1 AT5G53940_circ_g.1 AT5G53940_circ_g.2 AT5G53970_circ_g.1 AT5G53970_circ_g.2 AT5G54000_circ_g.1 AT5G54060_circ_g.1 ENSRNA049493776_circ_g.1 ENSRNA049493776_circ_g.2 ENSRNA049493776_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6 AT5G54080_circ_g.1 AT5G54080_circ_g.2 AT5G54080_circ_g.3 AT5G54080_circ_g.4 AT5G54090_circ_g.1 AT5G54090_circ_g.2 AT5G54090_circ_g.3 AT5G54090_circ_g.4 AT5G54100_circ_g.1 AT5G54130_circ_g.1 AT5G54130_circ_g.2 AT5G54130_circ_g.3 AT5G54130_circ_g.4 AT5G54130_circ_g.5 AT5G54160_circ_g.1 AT5G54160_circ_g.2 AT5G54170_circ_g.1 ENSRNA049493783_circ_g.1 ENSRNA049493783_circ_g.2 ENSRNA049493783_circ_g.3 ENSRNA049493783_circ_g.4
Support reads	1/1
Tissues	seedling;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	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	AT5G53860.5:8 AT5G53860.4:9 AT5G53860.1:7 AT5G53860.3:7 AT5G53860.2:8

			
						 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  
						
							GGAAATGTTGGAGCAGAAAGTGAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTTCCACAA
CCCATCTTGTTAAAGTCACAGAAGAAAGCTCAAAAGtggagagaaaccaacagcagattgtgtc
gcagatgctatagttgagaatcgagctgagttagttcatcttccctcctccttcaaccatagtg
ctccattg

									
								

					

						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: 847
Transcript exons: 21866433-21866565,21866783-21866842,21867010-21867069,21
867159-21867281,21867641-21867712,21867824-21867961,2186
8048-21868203,21868290-21868394
TGGAGAGAAACCAACAGCAGATTGTGTCGCAGATGCTATAGTTGAGAATCGAGCTGAGTTAGTT
CATCTTCCCTCCTCCTTCAACCATAGTGCTCCATTGCCATCAAAAGACTGCCCAACTTGTGATG
GAACGGGTGCGATGAGCTGTACTGAGTGCAAGAACAAGCTGCAAGTCAGAATCTCAGCTGATGA
TATCATGGAACCTCCATGGAAAGCCTATAATGTGCTGAAGAAGATGGATTATCCGTACGAGCAC
ATTGTTCACAGCATGAAAGATCCCAGCATTGCAAATTTCTGGTTGATCACTTTGCCTCAGATTG
TGGGTGGGTTTGATTATGATGAAGATGTCAAGAAGAAAATATGGTGGCAATATGAGGAATCTAT
GCGATATGATCAACTTCGGGACTTGGTGGCTAAACGCAATCCTGGCTGGGAATATTTGCAGGAT
GCCTTGGTCTCCATTGATCCTGTCCGTGCTCGGGAAGACCCCGTCATAGTGAAGAATGTCCCTT
ATTACAAGGCTAAGAAATCTCTGGAGGCTGAAGTCACGAAACTCAATCCACCTCCCCGTCCTCA
GAATTGGGGTGAACTGAATCTCCCATTGAATATTTCCTCTTGGAGTGAAGAGGATCTCAAAAAC
CCGGCAAAACTGTACGAGAAGACAGTTCTTCTCAATGCTCAAAGAGAAATCGCAGACAAAATCT
TGGATGCACAATGGGAAGCTAAATGGCGTCAAGAGAAGGTGGAGGAAATGTTGGAGCAGAAAGT
GAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTTCCACAACCCATCTTGTTAAAGTCACAG
AAGAAAGCTCAAAAG
						
					

						Genomic sequence
						
							TGGAGAGAAACCAACAGCAGATTGTGTCGCAGATGCTATAGTTGAGAATCGAGCTGAGTTAGTT
CATCTTCCCTCCTCCTTCAACCATAGTGCTCCATTGCCATCAAAAGACTGCCCAACTTGTGATG
GAACGGTAAGCTTTTTAATCTCGCTCTTAATGCTCTAGGCTTCTGTAAATGTATTTGCACTGCT
ATATTTGATACTGATTTGGTTTATATCTCCAAATTGTCAACTATGCTAATTTCATATCCACGTA
AAAAGGTGCTTGTTTGTGTTAAGAGTGATCGCGATAGGCTGTTTTTCATCAGTGTATGCTTAGA
AATTTGATGGAACATCTATTGATATTGAAGGGTGCGATGAGCTGTACTGAGTGCAAGAACAAGC
TGCAAGTCAGAATCTCAGCTGATGATGTATGTTTTGAGTCTGCTATTACGTCTTCTCAGCTTAA
CATCTACATAAATCCCCTGTGGGATGTATATATACTAGTTATTAGAAATGAAATGCACATGGAG
AGGTAGTTTGGTTTTGAACAAAACTATCACTTGCTAAATACCTTTACTGACGATTCATTTTGCA
GATCATGGAACCTCCATGGAAAGCCTATAATGTGCTGAAGAAGATGGATTATCCGTACGAGGTG
AGCACCACAAAGTCTATTTATCAACCCAACAGCTTGCTATGTTTACTACATCTTTACCGTCTTA
TGAGTCATATTTTCTATTTCAGCACATTGTTCACAGCATGAAAGATCCCAGCATTGCAAATTTC
TGGTTGATCACTTTGCCTCAGATTGTGGGTGGGTTTGATTATGATGAAGATGTCAAGAAGAAAA
TATGGTGGCAATATGAGGTTAGTATCTCTTTCTACATATGTAGATCTCCTTCAGCATGAGTTAT
TTGCCAGGCTTCACTTTTGAGGTTATGGTCTTCTAGAGGCTTAAAGCATGCATACCGTAAAAGG
TTTAGTCTACAATTACCTGATAGTTGAATCTTCTTAATCCTCATTTGGGATGGTTTTGCTACAC
CAACATAGTTTCGATTCCATATCTGGATAGGTTTGTGCTATGGAATTGGAGACATTTGTGGGAT
ACTGATGTACTCAGGGATCTGTATTGCATAGAATTTTCTGTTCAATAGGAACTATTGTTGTTGA
ATACTTCAGCTTTAAGCATCAATGAGAGTTTAACTATTTATGTCTTCTGTGATCAGGAATCTAT
GCGATATGATCAACTTCGGGACTTGGTGGCTAAACGCAATCCTGGCTGGGAATATTTGCAGGAT
GTAAGATCGCCTATTTGTGGTTTTAAAGTTTAGGCAAATCTGGGGAACTACATTGGAATATGTT
AGCTGAAGAAGTTTAGCAATCACCATATAGTTGTCATGGTTTTACAGGCCTTGGTCTCCATTGA
TCCTGTCCGTGCTCGGGAAGACCCCGTCATAGTGAAGAATGTCCCTTATTACAAGGCTAAGAAA
TCTCTGGAGGCTGAAGTCACGAAACTCAATCCACCTCCCCGTCCTCAGAATTGGGGTGTAAGCT
TTCTTCTTCTTTTTGGTTTTAGCATCACAGTTCCTGAGACCACGGGTATAGTTAAGAACTAACT
GCTGAACATGTACAGGAACTGAATCTCCCATTGAATATTTCCTCTTGGAGTGAAGAGGATCTCA
AAAACCCGGCAAAACTGTACGAGAAGACAGTTCTTCTCAATGCTCAAAGAGAAATCGCAGACAA
AATCTTGGATGCACAATGGGAAGCTAAATGGCGTCAAGAGAAGGTTAATCAAGGAACTTTTTTA
CACAATTCGGTATTCATATCACATTCACGACTCCAATGCATACCGTTTATCTTTTTGATTTGTA
GGTGGAGGAAATGTTGGAGCAGAAAGTGAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTT
CCACAACCCATCTTGTTAAAGTCACAGAAGAAAGCTCAAAAG
						
					

			
		

Sequences
Splice junction sequence	GGAAATGTTGGAGCAGAAAGTGAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTTCCACAA CCCATCTTGTTAAAGTCACAGAAGAAAGCTCAAAAGtggagagaaaccaacagcagattgtgtc gcagatgctatagttgagaatcgagctgagttagttcatcttccctcctccttcaaccatagtg ctccattg
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: 847 Transcript exons: 21866433-21866565,21866783-21866842,21867010-21867069,21 867159-21867281,21867641-21867712,21867824-21867961,2186 8048-21868203,21868290-21868394 TGGAGAGAAACCAACAGCAGATTGTGTCGCAGATGCTATAGTTGAGAATCGAGCTGAGTTAGTT CATCTTCCCTCCTCCTTCAACCATAGTGCTCCATTGCCATCAAAAGACTGCCCAACTTGTGATG GAACGGGTGCGATGAGCTGTACTGAGTGCAAGAACAAGCTGCAAGTCAGAATCTCAGCTGATGA TATCATGGAACCTCCATGGAAAGCCTATAATGTGCTGAAGAAGATGGATTATCCGTACGAGCAC ATTGTTCACAGCATGAAAGATCCCAGCATTGCAAATTTCTGGTTGATCACTTTGCCTCAGATTG TGGGTGGGTTTGATTATGATGAAGATGTCAAGAAGAAAATATGGTGGCAATATGAGGAATCTAT GCGATATGATCAACTTCGGGACTTGGTGGCTAAACGCAATCCTGGCTGGGAATATTTGCAGGAT GCCTTGGTCTCCATTGATCCTGTCCGTGCTCGGGAAGACCCCGTCATAGTGAAGAATGTCCCTT ATTACAAGGCTAAGAAATCTCTGGAGGCTGAAGTCACGAAACTCAATCCACCTCCCCGTCCTCA GAATTGGGGTGAACTGAATCTCCCATTGAATATTTCCTCTTGGAGTGAAGAGGATCTCAAAAAC CCGGCAAAACTGTACGAGAAGACAGTTCTTCTCAATGCTCAAAGAGAAATCGCAGACAAAATCT TGGATGCACAATGGGAAGCTAAATGGCGTCAAGAGAAGGTGGAGGAAATGTTGGAGCAGAAAGT GAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTTCCACAACCCATCTTGTTAAAGTCACAG AAGAAAGCTCAAAAG
Genomic sequence	TGGAGAGAAACCAACAGCAGATTGTGTCGCAGATGCTATAGTTGAGAATCGAGCTGAGTTAGTT CATCTTCCCTCCTCCTTCAACCATAGTGCTCCATTGCCATCAAAAGACTGCCCAACTTGTGATG GAACGGTAAGCTTTTTAATCTCGCTCTTAATGCTCTAGGCTTCTGTAAATGTATTTGCACTGCT ATATTTGATACTGATTTGGTTTATATCTCCAAATTGTCAACTATGCTAATTTCATATCCACGTA AAAAGGTGCTTGTTTGTGTTAAGAGTGATCGCGATAGGCTGTTTTTCATCAGTGTATGCTTAGA AATTTGATGGAACATCTATTGATATTGAAGGGTGCGATGAGCTGTACTGAGTGCAAGAACAAGC TGCAAGTCAGAATCTCAGCTGATGATGTATGTTTTGAGTCTGCTATTACGTCTTCTCAGCTTAA CATCTACATAAATCCCCTGTGGGATGTATATATACTAGTTATTAGAAATGAAATGCACATGGAG AGGTAGTTTGGTTTTGAACAAAACTATCACTTGCTAAATACCTTTACTGACGATTCATTTTGCA GATCATGGAACCTCCATGGAAAGCCTATAATGTGCTGAAGAAGATGGATTATCCGTACGAGGTG AGCACCACAAAGTCTATTTATCAACCCAACAGCTTGCTATGTTTACTACATCTTTACCGTCTTA TGAGTCATATTTTCTATTTCAGCACATTGTTCACAGCATGAAAGATCCCAGCATTGCAAATTTC TGGTTGATCACTTTGCCTCAGATTGTGGGTGGGTTTGATTATGATGAAGATGTCAAGAAGAAAA TATGGTGGCAATATGAGGTTAGTATCTCTTTCTACATATGTAGATCTCCTTCAGCATGAGTTAT TTGCCAGGCTTCACTTTTGAGGTTATGGTCTTCTAGAGGCTTAAAGCATGCATACCGTAAAAGG TTTAGTCTACAATTACCTGATAGTTGAATCTTCTTAATCCTCATTTGGGATGGTTTTGCTACAC CAACATAGTTTCGATTCCATATCTGGATAGGTTTGTGCTATGGAATTGGAGACATTTGTGGGAT ACTGATGTACTCAGGGATCTGTATTGCATAGAATTTTCTGTTCAATAGGAACTATTGTTGTTGA ATACTTCAGCTTTAAGCATCAATGAGAGTTTAACTATTTATGTCTTCTGTGATCAGGAATCTAT GCGATATGATCAACTTCGGGACTTGGTGGCTAAACGCAATCCTGGCTGGGAATATTTGCAGGAT GTAAGATCGCCTATTTGTGGTTTTAAAGTTTAGGCAAATCTGGGGAACTACATTGGAATATGTT AGCTGAAGAAGTTTAGCAATCACCATATAGTTGTCATGGTTTTACAGGCCTTGGTCTCCATTGA TCCTGTCCGTGCTCGGGAAGACCCCGTCATAGTGAAGAATGTCCCTTATTACAAGGCTAAGAAA TCTCTGGAGGCTGAAGTCACGAAACTCAATCCACCTCCCCGTCCTCAGAATTGGGGTGTAAGCT TTCTTCTTCTTTTTGGTTTTAGCATCACAGTTCCTGAGACCACGGGTATAGTTAAGAACTAACT GCTGAACATGTACAGGAACTGAATCTCCCATTGAATATTTCCTCTTGGAGTGAAGAGGATCTCA AAAACCCGGCAAAACTGTACGAGAAGACAGTTCTTCTCAATGCTCAAAGAGAAATCGCAGACAA AATCTTGGATGCACAATGGGAAGCTAAATGGCGTCAAGAGAAGGTTAATCAAGGAACTTTTTTA CACAATTCGGTATTCATATCACATTCACGACTCCAATGCATACCGTTTATCTTTTTGATTTGTA GGTGGAGGAAATGTTGGAGCAGAAAGTGAGACCTTACATCCAAGACTCAAGCATGGCTGTTCTT CCACAACCCATCTTGTTAAAGTCACAGAAGAAAGCTCAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.185679277

Conservation Information
Conserved circRNAs	NA
PMCS	0.185679277

			
						 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 AT5G53860_circ_g.8

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