Plant Circular RNA Database

Detail information of AT4G32420_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT4G32420_circ_g.4
					
						ID in PlantcircBase
						ath_circ_034061
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15649690-15650722  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT4G32420						
					
						Parent gene annotation
						
							Peptidyl-prolyl cis-trans isomerase CYP95
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G32420_circ_g.3 AT4G32420_circ_g.5 AT4G32420_circ_g.6 AT4G32420_circ_g.7 AT4G32420_circ_g.8 AT4G32420_circ_g.9 AT4G32420_circ_g.10 AT4G32420_circ_g.11 AT4G32420_circ_g.12 AT4G32420_circ_g.13 AT4G32420_circ_g.14 AT4G32420_circ_g.15 						
					
						Support reads
						1
					
						Tissues
						inflorescences
					
						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
						AT4G32420.4:4
AT4G32420.2:4
AT4G32420.1:4
AT4G32420.3:4
AT4G32420.5:4
AT4G32420.6:4

General Information
CircRNA Name	AT4G32420_circ_g.4
ID in PlantcircBase	ath_circ_034061
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 15649690-15650722 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT4G32420
Parent gene annotation	Peptidyl-prolyl cis-trans isomerase CYP95
Parent gene strand	-
Alternative splicing	AT4G32420_circ_g.3 AT4G32420_circ_g.5 AT4G32420_circ_g.6 AT4G32420_circ_g.7 AT4G32420_circ_g.8 AT4G32420_circ_g.9 AT4G32420_circ_g.10 AT4G32420_circ_g.11 AT4G32420_circ_g.12 AT4G32420_circ_g.13 AT4G32420_circ_g.14 AT4G32420_circ_g.15
Support reads	1
Tissues	inflorescences
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	AT4G32420.4:4 AT4G32420.2:4 AT4G32420.1:4 AT4G32420.3:4 AT4G32420.5:4 AT4G32420.6:4

			
						 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  
						
							GGCCTGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACATAGATAAAA
GACCAGTCTCCTCATGTCTTAGTTTCGGTGACTCATctgttctacgagagactctgtgtttcct
cttttttgctccaatttcaacattgacatcactaagacttgcttcacttccactattactgtct
tcaagact

									
								

					

						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: 621
Transcript exons: 15649690-15649799,15650002-15650317,15650438-15650514,15
650605-15650722
CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG
ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTTCTTGATTTGCGTTTC
GGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTAGACCGCCTGT
GCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGGAACTAAGGAA
GGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGTCTCAGAATCT
GAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACTCTTAAAGACT
TCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTTCCTCATCACCCACACGTTC
AATTTTTTTCAATATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTATCAAGC
TGCTGATTTGGCCTGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACA
TAGATAAAAGACCAGTCTCCTCATGTCTTAGTTTCGGTGACTCAT
Transcript length: 672
Transcript exons: 15649690-15649799,15650002-15650317,15650387-15650514,15
650605-15650722
CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG
ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTTCTTGATTTGCGTTTC
GGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTAGACCGCCTGT
GCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGGAACTAAGGAA
GGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGTCTCAGAATCT
GAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACTCTTAAAGACT
TCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTCCAGAATATTCTCCACAACG
GATTATCTTCACGCTGACAGTAGGTTTACCTTCCTCATCACCCACACGTTCAATTTTTTTCAAT
ATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTATCAAGCTGCTGATTTGGCC
TGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACATAGATAAAAGACC
AGTCTCCTCATGTCTTAGTTTCGGTGACTCAT
						
					

						Genomic sequence
						
							CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG
ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTGAAAAGTTGCAGAACA
CAAGTGAATAACTCTGGAGCAGATACAGGTAAGTAAAATTGTTAGGATATCTATCAAATTATTA
CATCCTAGAGGAACAAAATTAATCTAGCTTAGATCCATAGAAAATAATAAATTTCAGAAAGTAA
CCAGCATTGACACGGAAACTATGGCTATAACAAGTGAAGTGTACAAGACTTGCAACCTTCTTGA
TTTGCGTTTCGGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTA
GACCGCCTGTGCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGG
AACTAAGGAAGGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGT
CTCAGAATCTGAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACT
CTTAAAGACTTCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTGCATGGATTG
GTTATAATTGTGAAATCATGACTTATGTAGTAGAAACCAATAGGAGCAGATTCGTACCTCCAGA
ATATTCTCCACAACGGATTATCTTCACGCTGACAGTAGGTTTACCTTCCTCATCACCCACACGT
TCAATTTTTTTCAATATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTGATGA
AAATATAAACCAGTCAGAAATAACACAATGCCCAAAGGAAAATCCACATTCCTGAAATAAACAA
AGTAATATTGAGAGGAAACCTATCAAGCTGCTGATTTGGCCTGAAGGTAATATGAAAGTGTGAT
CCGAACTTGTCACGGTCTGCAATCGACATAGATAAAAGACCAGTCTCCTCATGTCTTAGTTTCG
GTGACTCAT
						
					

			
		

Sequences
Splice junction sequence	GGCCTGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACATAGATAAAA GACCAGTCTCCTCATGTCTTAGTTTCGGTGACTCATctgttctacgagagactctgtgtttcct cttttttgctccaatttcaacattgacatcactaagacttgcttcacttccactattactgtct tcaagact
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: 621 Transcript exons: 15649690-15649799,15650002-15650317,15650438-15650514,15 650605-15650722 CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTTCTTGATTTGCGTTTC GGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTAGACCGCCTGT GCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGGAACTAAGGAA GGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGTCTCAGAATCT GAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACTCTTAAAGACT TCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTTCCTCATCACCCACACGTTC AATTTTTTTCAATATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTATCAAGC TGCTGATTTGGCCTGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACA TAGATAAAAGACCAGTCTCCTCATGTCTTAGTTTCGGTGACTCAT Transcript length: 672 Transcript exons: 15649690-15649799,15650002-15650317,15650387-15650514,15 650605-15650722 CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTTCTTGATTTGCGTTTC GGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTAGACCGCCTGT GCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGGAACTAAGGAA GGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGTCTCAGAATCT GAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACTCTTAAAGACT TCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTCCAGAATATTCTCCACAACG GATTATCTTCACGCTGACAGTAGGTTTACCTTCCTCATCACCCACACGTTCAATTTTTTTCAAT ATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTATCAAGCTGCTGATTTGGCC TGAAGGTAATATGAAAGTGTGATCCGAACTTGTCACGGTCTGCAATCGACATAGATAAAAGACC AGTCTCCTCATGTCTTAGTTTCGGTGACTCAT
Genomic sequence	CTGTTCTACGAGAGACTCTGTGTTTCCTCTTTTTTGCTCCAATTTCAACATTGACATCACTAAG ACTTGCTTCACTTCCACTATTACTGTCTTCAAGACTGTCAGGGGACCTGAAAAGTTGCAGAACA CAAGTGAATAACTCTGGAGCAGATACAGGTAAGTAAAATTGTTAGGATATCTATCAAATTATTA CATCCTAGAGGAACAAAATTAATCTAGCTTAGATCCATAGAAAATAATAAATTTCAGAAAGTAA CCAGCATTGACACGGAAACTATGGCTATAACAAGTGAAGTGTACAAGACTTGCAACCTTCTTGA TTTGCGTTTCGGTCTCTTATCACGCATACTCCGCTTTTTCTCATGGCGCTTATCTCTCTGTTTA GACCGCCTGTGCTTGTCTTTCTTTGAACTTCTTTTTCTCTTCTTCTGCCTTTCATGGCTCGAGG AACTAAGGAAGGAAGGTGAAGACAAGTCTGAATCTGACTCACTATCAGATTCTGAGGAATCTGT CTCAGAATCTGAAGAGCTCTCAGACTCAGATGAAGAGTGTCTTCGCCTCTTTTTTCTTCTCACT CTTAAAGACTTCTTGTGCTTTCCATTTTTTTTACCGTCACTTTTCTTCTTATCTGCATGGATTG GTTATAATTGTGAAATCATGACTTATGTAGTAGAAACCAATAGGAGCAGATTCGTACCTCCAGA ATATTCTCCACAACGGATTATCTTCACGCTGACAGTAGGTTTACCTTCCTCATCACCCACACGT TCAATTTTTTTCAATATCTCTTTCCCTTGAATTAGCTTTCCGAAAACAACATTATTTCTGATGA AAATATAAACCAGTCAGAAATAACACAATGCCCAAAGGAAAATCCACATTCCTGAAATAAACAA AGTAATATTGAGAGGAAACCTATCAAGCTGCTGATTTGGCCTGAAGGTAATATGAAAGTGTGAT CCGAACTTGTCACGGTCTGCAATCGACATAGATAAAAGACCAGTCTCCTCATGTCTTAGTTTCG GTGACTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.211117216

Conservation Information
Conserved circRNAs	NA
PMCS	0.211117216

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15650679-15649692(-)
						
						Potential amino acid sequence
						
							MSIADRDKFGSHFHITFRPNQQLDRNNVVFGKLIQGKEILKKIERVGDEEGKPTVSVKIIRCGE
YSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSSSESESSSDSETDSSESDSESDSDLSSPSFLSS
SSHERQKKRKRSSKKDKHRRSKQRDKRHEKKRSMRDKRPKRKSRRSPDSLEDSNSGSEASLSDV
NVEIGAKKRKHRVSRRTDESPKLRHEETGLLSMSIADRDKFGSHFHITFRPNQQLDRNNVVFGK
LIQGKEILKKIERVGDEEGKPTVSVKIIRCGEYSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSS
SESESSSDSETDSSESDSESDSDLSSPSFLSSSSHERQKKRKRSSKKDKHRRSKQRDKRHEKKR
SMRDKRPKRKSRRSPDSLEDSNSGSEASLSDVNVEIGAKKRKHRVSRRTDESPKLRHEETGLLS
MSIADRDKFGSHFHITFRPNQQLDRNNVVFGKLIQGKEILKKIERVGDEEGKPTVSVKIIRCGE
YSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSSSESESSSDSETDSSESDSESDSDLSSPSFLSS
SSHERQKKRKRSSKKDKHRRSKQRDKRHEKKRSMRDKRPKRKSRRSPDSLEDSNSGSEASLSDV
NVEIGAKKRKHRVSRRTDESPKLRHEETGLLSMSIADRDKFGSHFHITFRPNQQLDRNNVVFGK
LIQGKEILKKIERVGDEEGKPTVSVKIIRCGEYSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSS
SESESSSDSETDSSESDSESDSDLSSPSFLSSSSHERQKKRKRSSKKDKHRRSKQRDKRHEKKR
SMRDKRPKRKSRRSPDSLEDSNSGSEASLSDVNVEIGAKKRKHRVSRRT(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15650679-15649692(-)
Potential amino acid sequence	MSIADRDKFGSHFHITFRPNQQLDRNNVVFGKLIQGKEILKKIERVGDEEGKPTVSVKIIRCGE YSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSSSESESSSDSETDSSESDSESDSDLSSPSFLSS SSHERQKKRKRSSKKDKHRRSKQRDKRHEKKRSMRDKRPKRKSRRSPDSLEDSNSGSEASLSDV NVEIGAKKRKHRVSRRTDESPKLRHEETGLLSMSIADRDKFGSHFHITFRPNQQLDRNNVVFGK LIQGKEILKKIERVGDEEGKPTVSVKIIRCGEYSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSS SESESSSDSETDSSESDSESDSDLSSPSFLSSSSHERQKKRKRSSKKDKHRRSKQRDKRHEKKR SMRDKRPKRKSRRSPDSLEDSNSGSEASLSDVNVEIGAKKRKHRVSRRTDESPKLRHEETGLLS MSIADRDKFGSHFHITFRPNQQLDRNNVVFGKLIQGKEILKKIERVGDEEGKPTVSVKIIRCGE YSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSSSESESSSDSETDSSESDSESDSDLSSPSFLSS SSHERQKKRKRSSKKDKHRRSKQRDKRHEKKRSMRDKRPKRKSRRSPDSLEDSNSGSEASLSDV NVEIGAKKRKHRVSRRTDESPKLRHEETGLLSMSIADRDKFGSHFHITFRPNQQLDRNNVVFGK LIQGKEILKKIERVGDEEGKPTVSVKIIRCGEYSGDKKKSDGKKNGKHKKSLRVRRKKRRRHSS SESESSSDSETDSSESDSESDSDLSSPSFLSSSSHERQKKRKRSSKKDKHRRSKQRDKRHEKKR SMRDKRPKRKSRRSPDSLEDSNSGSEASLSDVNVEIGAKKRKHRVSRRT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT4G32420_circ_g.4

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