Plant Circular RNA Database

Detail information of AT4G10570_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT4G10570_circ_g.6
					
						ID in PlantcircBase
						ath_circ_030225
					
						Alias
						AT4G10570_C2
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 6525645-6527634  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder, CIRI2
					
						Parent gene
						
							AT4G10570						
					
						Parent gene annotation
						
							Ubiquitin carboxyl-terminal hydrolase 10
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G10570_circ_g.1 4_circ_ag.2 4_circ_ag.3 AT4G10570_circ_g.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 AT4G10570_circ_g.11 AT4G10570_circ_g.12 AT4G10570_circ_g.13 4_circ_ag.14 AT4G10570_circ_g.15 AT4G10570_circ_g.16 4_circ_ag.17 4_circ_ag.18 AT4G10570_circ_g.19 AT4G10570_circ_g.20 4_circ_ag.21 4_circ_ag.22 4_circ_ag.23 AT4G10590_circ_g.1 AT4G10590_circ_g.2 AT4G10590_circ_g.3 AT4G10590_circ_g.4 						
					
						Support reads
						7
					
						Tissues
						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
						AT4G10570.1:7

General Information
CircRNA Name	AT4G10570_circ_g.6
ID in PlantcircBase	ath_circ_030225
Alias	AT4G10570_C2
Organism	Arabidpsis thaliana
Position	chr4: 6525645-6527634 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder, CIRI2
Parent gene	AT4G10570
Parent gene annotation	Ubiquitin carboxyl-terminal hydrolase 10
Parent gene strand	-
Alternative splicing	AT4G10570_circ_g.1 4_circ_ag.2 4_circ_ag.3 AT4G10570_circ_g.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 AT4G10570_circ_g.11 AT4G10570_circ_g.12 AT4G10570_circ_g.13 4_circ_ag.14 AT4G10570_circ_g.15 AT4G10570_circ_g.16 4_circ_ag.17 4_circ_ag.18 AT4G10570_circ_g.19 AT4G10570_circ_g.20 4_circ_ag.21 4_circ_ag.22 4_circ_ag.23 AT4G10590_circ_g.1 AT4G10590_circ_g.2 AT4G10590_circ_g.3 AT4G10590_circ_g.4
Support reads	7
Tissues	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	AT4G10570.1:7

			
						 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  
						
							ATGGTTATCAATCGGTCCAGGCCTCGGAGCTTCCGAAGACTCTCCAGTTGAACATTCATTAGCC
GAATTCTCAACATATTCCTGCCAGCTTGTATACCACttgacagacgtcaactattacagaatca
tttcgggccttatgataattccaaagctcttcagcaacttcatcatccggacgactgtcagaat
ctttaagt

									
								

					

						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: 1207
Transcript exons: 6525645-6525815,6525893-6526033,6526119-6526496,6526748-
6526846,6526968-6527027,6527174-6527318,6527422-6527634
TTGACAGACGTCAACTATTACAGAATCATTTCGGGCCTTATGATAATTCCAAAGCTCTTCAGCA
ACTTCATCATCCGGACGACTGTCAGAATCTTTAAGTTCGATGTAAGGTTTTCGTTTGACCTTAT
TCAAATCTTCATGCAGCCCATCTAATAAGAAAGCAAGCAGTTCTTGAGAATCATGCTGATTGTA
ACCACTAAACTGTGGGGCAAATCTAGCCAATTTCGTCTTAAAAGCGCGTGGTGCAACTGCATTC
CTTCCTGATGACCATAATTTCTTCAACAAATCACCAAACGCGATAGCAAGCTCACCACACATTC
CCAAAGGATTATCTCTATTTATGTCGTCACTGTAATCTTGCAAGAAGTATTCAACAATTGGAGG
TGTGTGGGCCAAACACTGAAGAGCGCTATTCATAAAGCAGGTATTTCCCAAATTACTCAATCCT
GCTAATCCTCCCTTTTCTCCTTTTCCAAGAATACTCAAAGAATCTCTGCCGTCGTCTTCAGAAG
TTATTCTCGGAAAGAGACTAAAGTTGGACGTAGTGGAATGACCATTTGATAGGGTAGGCCCCCC
AGCAATTGTAACAATCGACCTTGAAGGTTCCAGAGGTACCAGAGCTAACTCATTTCCTGTCGAG
CTCATAGCAGATTGAGAGGAGGAAGACAACCCATCAACTTCAACAAGAATATCTTGGTCCATAT
GAAGGCTTGACTCTTCCAGGCTCTTGTAAGATAAAGGATCCAACAGTCCGTTTTTCCTCTTATC
GAAGTAATCCCAGATATGAGCCTTTTCTTGCGGTACCCCTGTCATAGCACAAACCTTCTCATAA
AGTTCCCTTATAGAGGCCTGTTTTCCCAACCGTATTACAGTTCTACTTTCATCTCGTCCGTCTG
TCAACATAAGGCAGAGTGGATAAACCTCTACACTATAACTCCTTGTATAAAAGCCTTGACAGAT
CAACTTCCTTTCTATCGGAGGACCTCCGCTATACCATTCAACAAGTCTTTTCCAAACTTGTTTA
GGAACTAAAACGTAGTCCTCCCCTTCCACCAGCAATCTACGAAGTTGTGGATCATTAATGTCGC
TATCACTTTCGATAATATCATGGTTATCAATCGGTCCAGGCCTCGGAGCTTCCGAAGACTCTCC
AGTTGAACATTCATTAGCCGAATTCTCAACATATTCCTGCCAGCTTGTATACCAC
						
					

						Genomic sequence
						
							TTGACAGACGTCAACTATTACAGAATCATTTCGGGCCTTATGATAATTCCAAAGCTCTTCAGCA
ACTTCATCATCCGGACGACTGTCAGAATCTTTAAGTTCGATGTAAGGTTTTCGTTTGACCTTAT
TCAAATCTTCATGCAGCCCATCTAATAAGAAAGCAAGCAGTTCCTAAGACAACAACAATGTCAG
GAACAAAGAATCTGATTAATTATGCACCATCATACAGATTAGAGGAAATGACTAACTTGAGAAT
CATGCTGATTGTAACCACTAAACTGTGGGGCAAATCTAGCCAATTTCGTCTTAAAAGCGCGTGG
TGCAACTGCATTCCTTCCTGATGACCATAATTTCTTCAACAAATCACCAAACGCGATAGCAAGC
TCACCCTGAAAATTAAGAGTTAGAATTATATTCAGAATGCATGTGAGTACCATCACGAGGAAAT
AGAACATGTAAGTATCAAGCACTTACACACATTCCCAAAGGATTATCTCTATTTATGTCGTCAC
TGTAATCTTGCAAGAAGTATTCAACAATTGGAGGTGTGTGGGCCAAACACTGAAGAGCGCTATT
CATAAAGCAGGTATTTCCCAAATTACTCAATCCTGCTAATCCTCCCTTTTCTCCTTTTCCAAGA
ATACTCAAAGAATCTCTGCCGTCGTCTTCAGAAGTTATTCTCGGAAAGAGACTAAAGTTGGACG
TAGTGGAATGACCATTTGATAGGGTAGGCCCCCCAGCAATTGTAACAATCGACCTTGAAGGTTC
CAGAGGTACCAGAGCTAACTCATTTCCTGTCGAGCTCATAGCAGATTGAGAGGAGGAAGACAAC
CCATCAACTTCAACAAGAATCTGCATGGAATGCGCCAGTCAATGTCAAACAAAGAGACGAACAT
TGATATCATGTGAGTTAAATGGGATTCGGTTTGTGTCGATAAAAGAACTCAAGAGGCATGCATT
ATCCAACAGTAAAATATTTGTCAACAAAGATTCAAGACAATGACCCAAAATCAAGCATTATTAC
AAACTGAAGTCCAAGTGACAAAGGTGATTCGTCAATATTTGTCAATATACATATCACAGACAGT
TCTCTAGATACTTACATCTTGGTCCATATGAAGGCTTGACTCTTCCAGGCTCTTGTAAGATAAA
GGATCCAACAGTCCGTTTTTCCTCTTATCGAAGTAATCCCAGATATGAGCCTGCTTATAAAAAA
AATTATCAATGTGAGGCAAAGCTGCAAAGAGCACGACTTCATAACGAAACAATGCGTTTTTCAT
CAGCAAAAACTAGAAATAGAAATGAAACATCTCAAAAACACACCTTTTCTTGCGGTACCCCTGT
CATAGCACAAACCTTCTCATAAAGTTCCCTTATAGAGGCCTGAAACACGAACAACCCATGTAAG
AAAGGGACCAAAGTGGGGCCTAACAGTTTAAACACAAAGATTCATTGGCTATGCATAAGCACCA
TAAGTAGGTCGTAGCAAAACAAAGAGCCTGAGTAGTATGATCGGGGCCACCTAATACCTGTTTT
CCCAACCGTATTACAGTTCTACTTTCATCTCGTCCGTCTGTCAACATAAGGCAGAGTGGATAAA
CCTCTACACTATAACTCCTTGTATAAAAGCCTTGACAGATCAACTTCCTTTCTATCGGAGGACC
TCCGCTATACCTGCAAGAGACATAAGACCAGGTATATAAACAAAGAAATTAAATGAAACAATCA
TGCAGCAAAACCTGGACCTTGTCCCAATCAGAAAGAACCAAAAGCTCACCATTCAACAAGTCTT
TTCCAAACTTGTTTAGGAACTAAAACGTAGTCCTCCCCTTCCACCAGCAATCTACGAAGTTGTG
GATCATTAATGTCGCTATCACTTTCGATAATATCATGGTTATCAATCGGTCCAGGCCTCGGAGC
TTCCGAAGACTCTCCAGTTGAACATTCATTAGCCGAATTCTCAACATATTCCTGCCAGCTTGTA
TACCAC
						
					

			
		

Sequences
Splice junction sequence	ATGGTTATCAATCGGTCCAGGCCTCGGAGCTTCCGAAGACTCTCCAGTTGAACATTCATTAGCC GAATTCTCAACATATTCCTGCCAGCTTGTATACCACttgacagacgtcaactattacagaatca tttcgggccttatgataattccaaagctcttcagcaacttcatcatccggacgactgtcagaat ctttaagt
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: 1207 Transcript exons: 6525645-6525815,6525893-6526033,6526119-6526496,6526748- 6526846,6526968-6527027,6527174-6527318,6527422-6527634 TTGACAGACGTCAACTATTACAGAATCATTTCGGGCCTTATGATAATTCCAAAGCTCTTCAGCA ACTTCATCATCCGGACGACTGTCAGAATCTTTAAGTTCGATGTAAGGTTTTCGTTTGACCTTAT TCAAATCTTCATGCAGCCCATCTAATAAGAAAGCAAGCAGTTCTTGAGAATCATGCTGATTGTA ACCACTAAACTGTGGGGCAAATCTAGCCAATTTCGTCTTAAAAGCGCGTGGTGCAACTGCATTC CTTCCTGATGACCATAATTTCTTCAACAAATCACCAAACGCGATAGCAAGCTCACCACACATTC CCAAAGGATTATCTCTATTTATGTCGTCACTGTAATCTTGCAAGAAGTATTCAACAATTGGAGG TGTGTGGGCCAAACACTGAAGAGCGCTATTCATAAAGCAGGTATTTCCCAAATTACTCAATCCT GCTAATCCTCCCTTTTCTCCTTTTCCAAGAATACTCAAAGAATCTCTGCCGTCGTCTTCAGAAG TTATTCTCGGAAAGAGACTAAAGTTGGACGTAGTGGAATGACCATTTGATAGGGTAGGCCCCCC AGCAATTGTAACAATCGACCTTGAAGGTTCCAGAGGTACCAGAGCTAACTCATTTCCTGTCGAG CTCATAGCAGATTGAGAGGAGGAAGACAACCCATCAACTTCAACAAGAATATCTTGGTCCATAT GAAGGCTTGACTCTTCCAGGCTCTTGTAAGATAAAGGATCCAACAGTCCGTTTTTCCTCTTATC GAAGTAATCCCAGATATGAGCCTTTTCTTGCGGTACCCCTGTCATAGCACAAACCTTCTCATAA AGTTCCCTTATAGAGGCCTGTTTTCCCAACCGTATTACAGTTCTACTTTCATCTCGTCCGTCTG TCAACATAAGGCAGAGTGGATAAACCTCTACACTATAACTCCTTGTATAAAAGCCTTGACAGAT CAACTTCCTTTCTATCGGAGGACCTCCGCTATACCATTCAACAAGTCTTTTCCAAACTTGTTTA GGAACTAAAACGTAGTCCTCCCCTTCCACCAGCAATCTACGAAGTTGTGGATCATTAATGTCGC TATCACTTTCGATAATATCATGGTTATCAATCGGTCCAGGCCTCGGAGCTTCCGAAGACTCTCC AGTTGAACATTCATTAGCCGAATTCTCAACATATTCCTGCCAGCTTGTATACCAC
Genomic sequence	TTGACAGACGTCAACTATTACAGAATCATTTCGGGCCTTATGATAATTCCAAAGCTCTTCAGCA ACTTCATCATCCGGACGACTGTCAGAATCTTTAAGTTCGATGTAAGGTTTTCGTTTGACCTTAT TCAAATCTTCATGCAGCCCATCTAATAAGAAAGCAAGCAGTTCCTAAGACAACAACAATGTCAG GAACAAAGAATCTGATTAATTATGCACCATCATACAGATTAGAGGAAATGACTAACTTGAGAAT CATGCTGATTGTAACCACTAAACTGTGGGGCAAATCTAGCCAATTTCGTCTTAAAAGCGCGTGG TGCAACTGCATTCCTTCCTGATGACCATAATTTCTTCAACAAATCACCAAACGCGATAGCAAGC TCACCCTGAAAATTAAGAGTTAGAATTATATTCAGAATGCATGTGAGTACCATCACGAGGAAAT AGAACATGTAAGTATCAAGCACTTACACACATTCCCAAAGGATTATCTCTATTTATGTCGTCAC TGTAATCTTGCAAGAAGTATTCAACAATTGGAGGTGTGTGGGCCAAACACTGAAGAGCGCTATT CATAAAGCAGGTATTTCCCAAATTACTCAATCCTGCTAATCCTCCCTTTTCTCCTTTTCCAAGA ATACTCAAAGAATCTCTGCCGTCGTCTTCAGAAGTTATTCTCGGAAAGAGACTAAAGTTGGACG TAGTGGAATGACCATTTGATAGGGTAGGCCCCCCAGCAATTGTAACAATCGACCTTGAAGGTTC CAGAGGTACCAGAGCTAACTCATTTCCTGTCGAGCTCATAGCAGATTGAGAGGAGGAAGACAAC CCATCAACTTCAACAAGAATCTGCATGGAATGCGCCAGTCAATGTCAAACAAAGAGACGAACAT TGATATCATGTGAGTTAAATGGGATTCGGTTTGTGTCGATAAAAGAACTCAAGAGGCATGCATT ATCCAACAGTAAAATATTTGTCAACAAAGATTCAAGACAATGACCCAAAATCAAGCATTATTAC AAACTGAAGTCCAAGTGACAAAGGTGATTCGTCAATATTTGTCAATATACATATCACAGACAGT TCTCTAGATACTTACATCTTGGTCCATATGAAGGCTTGACTCTTCCAGGCTCTTGTAAGATAAA GGATCCAACAGTCCGTTTTTCCTCTTATCGAAGTAATCCCAGATATGAGCCTGCTTATAAAAAA AATTATCAATGTGAGGCAAAGCTGCAAAGAGCACGACTTCATAACGAAACAATGCGTTTTTCAT CAGCAAAAACTAGAAATAGAAATGAAACATCTCAAAAACACACCTTTTCTTGCGGTACCCCTGT CATAGCACAAACCTTCTCATAAAGTTCCCTTATAGAGGCCTGAAACACGAACAACCCATGTAAG AAAGGGACCAAAGTGGGGCCTAACAGTTTAAACACAAAGATTCATTGGCTATGCATAAGCACCA TAAGTAGGTCGTAGCAAAACAAAGAGCCTGAGTAGTATGATCGGGGCCACCTAATACCTGTTTT CCCAACCGTATTACAGTTCTACTTTCATCTCGTCCGTCTGTCAACATAAGGCAGAGTGGATAAA CCTCTACACTATAACTCCTTGTATAAAAGCCTTGACAGATCAACTTCCTTTCTATCGGAGGACC TCCGCTATACCTGCAAGAGACATAAGACCAGGTATATAAACAAAGAAATTAAATGAAACAATCA TGCAGCAAAACCTGGACCTTGTCCCAATCAGAAAGAACCAAAAGCTCACCATTCAACAAGTCTT TTCCAAACTTGTTTAGGAACTAAAACGTAGTCCTCCCCTTCCACCAGCAATCTACGAAGTTGTG GATCATTAATGTCGCTATCACTTTCGATAATATCATGGTTATCAATCGGTCCAGGCCTCGGAGC TTCCGAAGACTCTCCAGTTGAACATTCATTAGCCGAATTCTCAACATATTCCTGCCAGCTTGTA TACCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.323502093

Conservation Information
Conserved circRNAs	NA
PMCS	0.323502093

			
						 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;Zhang et al., 2019

circRNA

Detail information of AT4G10570_circ_g.6

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