Plant Circular RNA Database

Detail information of AT1G53780_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G53780_circ_g.3
					
						ID in PlantcircBase
						ath_circ_007233
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 20075016-20076590  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT1G53780						
					
						Parent gene annotation
						
							26S proteasome regulatory complex ATPase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							1_circ_ag.2 1_circ_ag.3 AT1G53750_circ_g.4 1_circ_ag.5 AT1G53750_circ_g.6 AT1G53750_circ_g.7 1_circ_ag.8 AT1G53750_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 1_circ_ag.13 1_circ_ag.14 AT1G53760_circ_g.1 AT1G53760_circ_g.2 AT1G53780_circ_g.1 AT1G53780_circ_g.2 AT1G53780_circ_g.4 AT1G53780_circ_g.5 AT1G53780_circ_g.6 AT1G53780_circ_g.7 AT1G53780_circ_g.8 AT1G53780_circ_g.9 AT1G53780_circ_g.10 						
					
						Support reads
						1
					
						Tissues
						whole_plant
					
						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
						AT1G53780.4:8
AT1G53780.1:8
AT1G53780.2:8
AT1G53780.3:8

General Information
CircRNA Name	AT1G53780_circ_g.3
ID in PlantcircBase	ath_circ_007233
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 20075016-20076590 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT1G53780
Parent gene annotation	26S proteasome regulatory complex ATPase
Parent gene strand	-
Alternative splicing	1_circ_ag.2 1_circ_ag.3 AT1G53750_circ_g.4 1_circ_ag.5 AT1G53750_circ_g.6 AT1G53750_circ_g.7 1_circ_ag.8 AT1G53750_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 1_circ_ag.13 1_circ_ag.14 AT1G53760_circ_g.1 AT1G53760_circ_g.2 AT1G53780_circ_g.1 AT1G53780_circ_g.2 AT1G53780_circ_g.4 AT1G53780_circ_g.5 AT1G53780_circ_g.6 AT1G53780_circ_g.7 AT1G53780_circ_g.8 AT1G53780_circ_g.9 AT1G53780_circ_g.10
Support reads	1
Tissues	whole_plant
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	AT1G53780.4:8 AT1G53780.1:8 AT1G53780.2:8 AT1G53780.3:8

			
						 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  
						
							CAATGAAAATTATCACTTACGATAAGAGAGGTTCAAAGTCTGAACGCATATTGTGGGGGCCCTC
ATTCTCAGGATCCTCCATAATATCTCTTATGATCATctgaaacagttcacgaaccatcctagct
ccttcaccaatgtacttctgaacgagctcactgccaacaaccctgataaagcaagcaccagttc
tattcgcc

									
								

					

						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
						
							CTGAAACAGTTCACGAACCATCCTAGCTCCTTCACCAATGTACTTCTGAACGAGCTCACTGCCA
ACAACCCTGATAAAGCAAGCACCAGTTCTATTCGCCACAGCTCTAGCGACAAGGGTTTTTCCGC
TACCAGGAGGACCATAGCAAAGAACACCCTTGGGAGGATCTATTCCAAGCCTCACAAATTTCTC
TGGATGAAGCATTGGCAGTTCAACGACCTACAATCAACAAAGACAGACGACAAAACTTTTAAAA
AACTTCTTCCTTGAAAACCTATACCACAACAATAAATTTACAACTCTAGGTGTTAAACAGAGAA
GATCTGAACACGGGATAATAACTAAACTAAACATATACCTCTCTAATCTTCTCAATCTGCTCCT
TGCAGCCACCGATATCACTGTAAGTTGCATCAGGTTTCTCTTCAACCGTCATCATGGTCACACT
AGGATCAATCTTTGGAGGTAGAGGAATCTGTATCTGATATTTCTTCTGATCAACTCTGCAAGTA
CAGATCAGAGACATAACGTTCTCGTAAGTTTTCATTCATATGAGAAATGTACAGCCTCAAATAG
GATTTGAACTGAAGAAATGTACATACCCCACACGCATTCCTGCTTCTATGTCAGTGGGAGAAGC
TTTATCGCCAAGTCCAACAACATACTGCAGTTAAGAAGCAAAACTAATATCAGCAATAAACCGA
ACAACAAAAGGTTCTACAACACAGAACTGATCGTGTAGCAACCACAACGTAGGGATATTGTTTA
CCTTGCCTATCTTTTTGATATCAACGACATACTTTGCATCTTCAGTGTTTGGACTGATTATCTG
TGTGCATGTCGCAACCTGGATAGGAAAACACATTTATTGTTGCCGTGAGAGAAGAAGCAAAATT
CAGAGAACTAAAAGAATAAAAAGCCTACAAGCAGAGGTTGCTCCTCTTGCATCATTTGCTTATC
AGATACAAGATCCCATTGATTGGGAGGAGCTAAACCAGTATCGGACTCCTTGATACCTGCAATG
AAAGTGAAAGCTTCACTTTAGTCATGCCCTAAACAGAAGTCACTAACTCCAAGCAAGCCCAAAA
CTTCAGCAACAAGAGTGCGAACATACCAAGATTGCAGATCTTCTCGGCGAGCTCATTGATTTCT
TTCTCTACTTTCTTTATGCGTGCAGAGTAAGGCTCCTGCTAAGGAATGAGGATTTTGAAGCTTT
AGAAGTATGATTATGCCATTCTTCTTTCTGCCAGATATGTAAAGCACGTTCGAATACGCATTCC
TCAATGTTCACCTCAAAATGTGCTTCACTTGCCTCCGTACTCCCAAACTCTGTAATGTCAGAAA
GCGCTTCTTCACTTGCCTCTGTACTATCAAACTCTATGATGTCACCTGTCTCGTAATCCCGGAG
GCGGAGCACTCTACCACAACCATATGCCAAAAAACTGAGAACTGAGTTTCTCATACGGATAAGG
AAGCAATGAAAATTATCACTTACGATAAGAGAGGTTCAAAGTCTGAACGCATATTGTGGGGGCC
CTCATTCTCAGGATCCTCCATAATATCTCTTATGATCAT
						
					

			
		

Sequences
Splice junction sequence	CAATGAAAATTATCACTTACGATAAGAGAGGTTCAAAGTCTGAACGCATATTGTGGGGGCCCTC ATTCTCAGGATCCTCCATAATATCTCTTATGATCATctgaaacagttcacgaaccatcctagct ccttcaccaatgtacttctgaacgagctcactgccaacaaccctgataaagcaagcaccagttc tattcgcc
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	CTGAAACAGTTCACGAACCATCCTAGCTCCTTCACCAATGTACTTCTGAACGAGCTCACTGCCA ACAACCCTGATAAAGCAAGCACCAGTTCTATTCGCCACAGCTCTAGCGACAAGGGTTTTTCCGC TACCAGGAGGACCATAGCAAAGAACACCCTTGGGAGGATCTATTCCAAGCCTCACAAATTTCTC TGGATGAAGCATTGGCAGTTCAACGACCTACAATCAACAAAGACAGACGACAAAACTTTTAAAA AACTTCTTCCTTGAAAACCTATACCACAACAATAAATTTACAACTCTAGGTGTTAAACAGAGAA GATCTGAACACGGGATAATAACTAAACTAAACATATACCTCTCTAATCTTCTCAATCTGCTCCT TGCAGCCACCGATATCACTGTAAGTTGCATCAGGTTTCTCTTCAACCGTCATCATGGTCACACT AGGATCAATCTTTGGAGGTAGAGGAATCTGTATCTGATATTTCTTCTGATCAACTCTGCAAGTA CAGATCAGAGACATAACGTTCTCGTAAGTTTTCATTCATATGAGAAATGTACAGCCTCAAATAG GATTTGAACTGAAGAAATGTACATACCCCACACGCATTCCTGCTTCTATGTCAGTGGGAGAAGC TTTATCGCCAAGTCCAACAACATACTGCAGTTAAGAAGCAAAACTAATATCAGCAATAAACCGA ACAACAAAAGGTTCTACAACACAGAACTGATCGTGTAGCAACCACAACGTAGGGATATTGTTTA CCTTGCCTATCTTTTTGATATCAACGACATACTTTGCATCTTCAGTGTTTGGACTGATTATCTG TGTGCATGTCGCAACCTGGATAGGAAAACACATTTATTGTTGCCGTGAGAGAAGAAGCAAAATT CAGAGAACTAAAAGAATAAAAAGCCTACAAGCAGAGGTTGCTCCTCTTGCATCATTTGCTTATC AGATACAAGATCCCATTGATTGGGAGGAGCTAAACCAGTATCGGACTCCTTGATACCTGCAATG AAAGTGAAAGCTTCACTTTAGTCATGCCCTAAACAGAAGTCACTAACTCCAAGCAAGCCCAAAA CTTCAGCAACAAGAGTGCGAACATACCAAGATTGCAGATCTTCTCGGCGAGCTCATTGATTTCT TTCTCTACTTTCTTTATGCGTGCAGAGTAAGGCTCCTGCTAAGGAATGAGGATTTTGAAGCTTT AGAAGTATGATTATGCCATTCTTCTTTCTGCCAGATATGTAAAGCACGTTCGAATACGCATTCC TCAATGTTCACCTCAAAATGTGCTTCACTTGCCTCCGTACTCCCAAACTCTGTAATGTCAGAAA GCGCTTCTTCACTTGCCTCTGTACTATCAAACTCTATGATGTCACCTGTCTCGTAATCCCGGAG GCGGAGCACTCTACCACAACCATATGCCAAAAAACTGAGAACTGAGTTTCTCATACGGATAAGG AAGCAATGAAAATTATCACTTACGATAAGAGAGGTTCAAAGTCTGAACGCATATTGTGGGGGCC CTCATTCTCAGGATCCTCCATAATATCTCTTATGATCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.178541077

Conservation Information
Conserved circRNAs	NA
PMCS	0.178541077

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20076591-20075018(-)
						
						Potential amino acid sequence
						
							MIIRDIMEDPENEGPHNMRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEAS
EAHFEQEPYSARIKKVEKEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVAT
CTQIISPNTEDAKYVVDIKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSV
TMMTVEEKPDATYSDIGGCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLV
ARAVANRTGACFIRVVGSELVQKYIGEGARMVRELFQMIIRDIMEDPENEGPHNMRSDFEPLLS
VLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEASEAHFEQEPYSARIKKVEKEINELAEKI
CNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVATCTQIISPNTEDAKYVVDIKKIGKYVVG
LGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSVTMMTVEEKPDATYSDIGGCKEQIEKIR
EVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLVARAVANRTGACFIRVVGSELVQKYIGE
GARMVRELFQMIIRDIMEDPENEGPHNMRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSD
ITEFGSTEASEAHFEQEPYSARIKKVEKEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMM
QEEQPLLVATCTQIISPNTEDAKYVVDIKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQI
PLPPKIDPSVTMMTVEEKPDATYSDIGGCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCY
GPPGSGKTLVARAVANRTGACFIRVVGSELVQKYIGEGARMVRELFQMIIRDIMEDPENEGPHN
MRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEASEAHFEQEPYSARIKKVE
KEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVATCTQIISPNTEDAKYVVD
IKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSVTMMTVEEKPDATYSDIG
GCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLVARAVANRTGACFIRVVG
SELVQKYIGEGARMVRELFQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20076591-20075018(-)
Potential amino acid sequence	MIIRDIMEDPENEGPHNMRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEAS EAHFEQEPYSARIKKVEKEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVAT CTQIISPNTEDAKYVVDIKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSV TMMTVEEKPDATYSDIGGCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLV ARAVANRTGACFIRVVGSELVQKYIGEGARMVRELFQMIIRDIMEDPENEGPHNMRSDFEPLLS VLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEASEAHFEQEPYSARIKKVEKEINELAEKI CNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVATCTQIISPNTEDAKYVVDIKKIGKYVVG LGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSVTMMTVEEKPDATYSDIGGCKEQIEKIR EVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLVARAVANRTGACFIRVVGSELVQKYIGE GARMVRELFQMIIRDIMEDPENEGPHNMRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSD ITEFGSTEASEAHFEQEPYSARIKKVEKEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMM QEEQPLLVATCTQIISPNTEDAKYVVDIKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQI PLPPKIDPSVTMMTVEEKPDATYSDIGGCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCY GPPGSGKTLVARAVANRTGACFIRVVGSELVQKYIGEGARMVRELFQMIIRDIMEDPENEGPHN MRSDFEPLLSVLRLRDYETGDIIEFDSTEASEEALSDITEFGSTEASEAHFEQEPYSARIKKVE KEINELAEKICNLGIKESDTGLAPPNQWDLVSDKQMMQEEQPLLVATCTQIISPNTEDAKYVVD IKKIGKYVVGLGDKASPTDIEAGMRVGVDQKKYQIQIPLPPKIDPSVTMMTVEEKPDATYSDIG GCKEQIEKIREVVELPMLHPEKFVRLGIDPPKGVLCYGPPGSGKTLVARAVANRTGACFIRVVG SELVQKYIGEGARMVRELFQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G53780_circ_g.3

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