Plant Circular RNA Database

Detail information of 1_circ_ag.4

			
						 General Information
					
						CircRNA Name
						1_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_007254
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 20155664-20159724  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							1_circ_ag.3 						
					
						Support reads
						9
					
						Tissues
						root
					
						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
						NA

General Information
CircRNA Name	1_circ_ag.4
ID in PlantcircBase	ath_circ_007254
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 20155664-20159724 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	1_circ_ag.3
Support reads	9
Tissues	root
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	NA

			
						 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  
						
							CACCAATGTATATCATAAACACTGACTTCTTCACGAAATCATCATTCCAATTTGCTGCTTTCAT
TTGATTGAACTTTCTCACTTGTTGATTCAGAGTCAAagattccaccggagctccgagtagagta
gcaccttcgacggcgaaactagctccacgtgagacattgacgttcggttgaagcgccggcgcga
tcgcgagc

									
								

					

						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
						
							AGATTCCACCGGAGCTCCGAGTAGAGTAGCACCTTCGACGGCGAAACTAGCTCCACGTGAGACA
TTGACGTTCGGTTGAAGCGCCGGCGCGATCGCGAGCGGAATCTTCATGAATTTAGCTGCATTTT
GTATTTTAAAAATATTTTAGTTTTTCATATAATATCAAATCATTCCTTGTACTACATCTCCGAA
TCTGTTGACGAAAATAATAAATAAAATTTCATAGAATGTGTCCCGAAAAGTGAATAGCCGCTGA
ACCAATGCATTTATAATCTTTTTTTTAATCATACTATTTACTATTTTTTAAGTAATTCACTAGT
AGCATACTTAAAATGCATTTATAAATACTACTGTTTATGATTATTTTTACGTAATCATACTATT
TTTAACATACTTAATGTTTTAAAGATTAGAGTAGGATTCGATTAGAAAAGAAGTCGTACCGAGG
AAGTCCGGAGTGATGAGGCCGTCGGAGAATTTGCCGTTGGGATCATCTCGAGATTTTCCGTACG
GCCAGAAACCTTGAGCGACTAAGGTTTTGGTGAGAGTCTGTTTGTTTCCGGCGTCGAAGTTGGA
GTCACCAAAGGTGAACAAGGCGACCACCGGACTATTCTGTCCGGCGACAGTGATGGGGTTGTGA
AAGAGGGTCAATACCAAAATTACACATAGAACACTGACTAAATTACAGTTGTTTGCCATCATTT
AGAGAGAGGGAGAAACAGAACTGTGAAAAGAGAAGAAGATTGCTTTTGTGCCTTAGCTCGTAGA
CCGATTCGTTATATTTATATTGCAAGTACTACAATTTGGCAATGAAAATAATAGTTCATTTTAC
TATACAAATAATAACGTGTAGCGCGAGGTTCATTTTACTATACACCTATTTAACGCACTAGCAA
ACGATTATCGATCAATTATATTATATAGTTCGCTTAATCACGTCTGACGCATTACTGGTTTCTC
TTCTACTTTATTTTTAATTCTCAACAAAATATCTATTGTTACTACGAGTACCAAGAAAGATCGT
GCTTTTTTTTTTTTGGTTCAACAACAACTTACAATTACACAAGAGTCTGAATACACATAAGCTT
TAACCCAATCCGGCAATATAGAATACAATTTGGGATCATAATTCAGAAAAGAAAGAGATTCCCT
AGCAATTCTATCTGCCACACAATTCCCTTCTCATCGGGTAAAAGTCACTTTAACCTCTTCGAAG
TGCTGAAAAGATCGTGCATTTAGAGGCAAGAAGTAGAATTAAACATACAAATTTCACGGAAATA
TAGGGTGTAAATGGTAACACTAAACCAGATTCAGTAATTTCTGCAGTAACCATTTGCATAAAAC
TAAATTTTGCTGACTAGCCAAATTCAACAAAAAAATTTCAACACCAACATATACGTAGATATGT
TTATTTCTGCTAAAACTTTTGGATAATTTACGAGTACACAACTCGAATTAAAATATTTTTAATA
TCAAAATACATATCAAATAGATATTTTTAAATAAGTCAGATTATACTGATACGATATATGAATA
ATATAGATACATAAAATATCACTACCAGAATAGACAAGAGACGAATATGTTCGGATAATTATAG
ATAATTTGGATAATAATTTTAATAACGTTTAGATAACTTAAATCAATTATTAAAATTTTGCAAA
AACAACTCATACCTATGCTAAGATATTCTTTAAAAGATAAATTATAGTAATTTCCTTAATCATC
CTCATCATATTATTGATTAAATTACTTGAAAACAATTAAAAAAAACAATTAACAATCTATATTT
TATCATCATGTTAATTTTTGAAATTATTTTCTTAATAGTGTTTTGACAAAGATTTTCGTTAATT
ATTTACATATTTTTAATAGTTCAAATTTAAATAAGAAAGAATAACTCAATTTTGCGTTGACACA
ATCTTAATAGTATAGGTAATAGCTTAGTTATGTATATATAAATTATAAAAACTTGTGGAGAGTT
GTTCCTTAAGATTTACAGTGAAGATTAGAGAAGATTAAGTTTTGAGAGAGTGTCTATATCAAAT
ACAGAAGAGTTGGTCCTTATTCGTTTGTAAGTTCTAGTAATTATCAATTTGATTGGAATCATTA
GAACGACAGAAAGGTGAACAATTTTGTTTCTAAAAGAGTGCAGAAACTAGATAAAAATAAAACA
CATTTGCTTACGTGAAGATGAAGTTTTATATGAAGAACGCCTCATTTGTTTGGTTCATCTATTA
TCTATATATATGATTTTTGGTTTTATTTCATATGAAAATTAACTGTAAATATAGCCGGCCCCAA
AGCCAGATGTATAAACTTATCTTTTCTGGAACTTTATAATTTCTACTTTTTATTTTCTTTGTTG
CCAATCATTTCGAATATTACCTTGCAAGAATAATTGCAAACAAAAAAAGAGGGTAAAAAAGGTC
TCAAATTGAATCCACTACCTTCTTAAATTGATTCCACCAAAATTTATCATTTTGTTCTAATGGA
GTGCATGTGGCCCGAAACTTGTCTAATCTGAGCACAAAGCAGGTCATTGGACACGCTTTGGTTC
ATATTGTCAGGTTTATCACGTTACTCATTGAGATTTTTCTTATGGAAAAAACAGAGTTGAGGTT
ACATTATTATTTTAAATCTCAACAAATTAATAACAGCGCATTTCAAATTCCAAGAGCTCGTTCA
TGGTATAGAGATGGAAAATAGTGAGCTCAAGAACTAAACGAGTTAGATAGATTCACTAGCATCG
ACGTCGACGTCATGGACTAACGATGATATTCTCATCCATTGGATCCTCCCAAAACTCACGCATA
GGCTCATTAACAGGATACACAATGAGCTCACGAACATTCATAGGTTGGATAACATTTGGGTCCG
CTCCAAAAGATAAGATGATGAGAAAACGCTTCTTGTGCCTTCTTTTTTTAATTATGGAATTACC
TTTTAATATGTGGTTGACAAAAAAAAGAAATAAATTTATGTAAAAGTTTTGTTTCTTTTAAATA
AAAGATTTGCAAGGGGTAAGAGTTGCAGAGATCAATCTTTTATTATGGAGGAAAACTCACTAGA
GAAACATGAAAACATTGGAAATTAAAACTACTCAAGATTCCGATATTGATCCAGTTATAATTTG
ACTCATAACCCTTATAGAAACCCCGATCGATCCCTAAATATTGATTTTAGAGACTCAGTAATAC
TCGTAACCGCGGCTCTCCCTGAGTTGAACGGTGGCTGACGTTGGGGGCACCCAAGACTCACGCA
TAGGTTCATCGGCAGGGTAAACGACAAGCTCACGGATGTTCATCGGTTGGATAACATTTGTATC
GGCTCCAAAAAGAAGATGACCAAACATCTCTTGCGCCTTCTCAGTGTTGTGACGTCCGTCGAAG
AATAGGTAAGACCGTTGGTACTCGCATAGCCTCGAATGTACGTTAGGAAAACCGCAACCATAAG
CATCATGTGTCCCAACTCCGCAGCACGATGCGTTCGTAACGAAAAATCCTAAGAATGGCAAATA
TTAAACACATGGTATTAGAAGTTATAAAAAAATTTAAAAATGAAATTAAACCATGATAATTAAC
CAACTCACGGAAGTTTTGGTTCCTCTGCGTCCTAGTAAGAATCGCGTTGTAGAAATCAAAGACG
GTGAATTGGAAAGGAGCTGATGCAGGAGCTGTTCTAGCCAATTCGTTCAACATCGGTCCAATTT
TTTCGTTGTGTTGTTTAGCCAAATCGTTGAGTTTCTCATAGCATTGATCCATCCCGGTGTTGAA
CTCTTGTCTGACGATGGGTAAGCAACCCAATGGAGCTAGGGTTTGGATCACAAATTTACTCGCT
CCTGATGAATACAACAAGCTGATATCGTTCTTTAACTTGTTGGTCACGGAAGTGACAAAAGCTT
GTTGAGTAGATGCATCGGCGTTAGGGTTGTTCTTGGTGAAATTCAAGTAATCGTTTGCACCAAT
GTATATCATAAACACTGACTTCTTCACGAAATCATCATTCCAATTTGCTGCTTTCATTTGATTG
AACTTTCTCACTTGTTGATTCAGAGTCAA
						
					

			
		

Sequences
Splice junction sequence	CACCAATGTATATCATAAACACTGACTTCTTCACGAAATCATCATTCCAATTTGCTGCTTTCAT TTGATTGAACTTTCTCACTTGTTGATTCAGAGTCAAagattccaccggagctccgagtagagta gcaccttcgacggcgaaactagctccacgtgagacattgacgttcggttgaagcgccggcgcga tcgcgagc
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	AGATTCCACCGGAGCTCCGAGTAGAGTAGCACCTTCGACGGCGAAACTAGCTCCACGTGAGACA TTGACGTTCGGTTGAAGCGCCGGCGCGATCGCGAGCGGAATCTTCATGAATTTAGCTGCATTTT GTATTTTAAAAATATTTTAGTTTTTCATATAATATCAAATCATTCCTTGTACTACATCTCCGAA TCTGTTGACGAAAATAATAAATAAAATTTCATAGAATGTGTCCCGAAAAGTGAATAGCCGCTGA ACCAATGCATTTATAATCTTTTTTTTAATCATACTATTTACTATTTTTTAAGTAATTCACTAGT AGCATACTTAAAATGCATTTATAAATACTACTGTTTATGATTATTTTTACGTAATCATACTATT TTTAACATACTTAATGTTTTAAAGATTAGAGTAGGATTCGATTAGAAAAGAAGTCGTACCGAGG AAGTCCGGAGTGATGAGGCCGTCGGAGAATTTGCCGTTGGGATCATCTCGAGATTTTCCGTACG GCCAGAAACCTTGAGCGACTAAGGTTTTGGTGAGAGTCTGTTTGTTTCCGGCGTCGAAGTTGGA GTCACCAAAGGTGAACAAGGCGACCACCGGACTATTCTGTCCGGCGACAGTGATGGGGTTGTGA AAGAGGGTCAATACCAAAATTACACATAGAACACTGACTAAATTACAGTTGTTTGCCATCATTT AGAGAGAGGGAGAAACAGAACTGTGAAAAGAGAAGAAGATTGCTTTTGTGCCTTAGCTCGTAGA CCGATTCGTTATATTTATATTGCAAGTACTACAATTTGGCAATGAAAATAATAGTTCATTTTAC TATACAAATAATAACGTGTAGCGCGAGGTTCATTTTACTATACACCTATTTAACGCACTAGCAA ACGATTATCGATCAATTATATTATATAGTTCGCTTAATCACGTCTGACGCATTACTGGTTTCTC TTCTACTTTATTTTTAATTCTCAACAAAATATCTATTGTTACTACGAGTACCAAGAAAGATCGT GCTTTTTTTTTTTTGGTTCAACAACAACTTACAATTACACAAGAGTCTGAATACACATAAGCTT TAACCCAATCCGGCAATATAGAATACAATTTGGGATCATAATTCAGAAAAGAAAGAGATTCCCT AGCAATTCTATCTGCCACACAATTCCCTTCTCATCGGGTAAAAGTCACTTTAACCTCTTCGAAG TGCTGAAAAGATCGTGCATTTAGAGGCAAGAAGTAGAATTAAACATACAAATTTCACGGAAATA TAGGGTGTAAATGGTAACACTAAACCAGATTCAGTAATTTCTGCAGTAACCATTTGCATAAAAC TAAATTTTGCTGACTAGCCAAATTCAACAAAAAAATTTCAACACCAACATATACGTAGATATGT TTATTTCTGCTAAAACTTTTGGATAATTTACGAGTACACAACTCGAATTAAAATATTTTTAATA TCAAAATACATATCAAATAGATATTTTTAAATAAGTCAGATTATACTGATACGATATATGAATA ATATAGATACATAAAATATCACTACCAGAATAGACAAGAGACGAATATGTTCGGATAATTATAG ATAATTTGGATAATAATTTTAATAACGTTTAGATAACTTAAATCAATTATTAAAATTTTGCAAA AACAACTCATACCTATGCTAAGATATTCTTTAAAAGATAAATTATAGTAATTTCCTTAATCATC CTCATCATATTATTGATTAAATTACTTGAAAACAATTAAAAAAAACAATTAACAATCTATATTT TATCATCATGTTAATTTTTGAAATTATTTTCTTAATAGTGTTTTGACAAAGATTTTCGTTAATT ATTTACATATTTTTAATAGTTCAAATTTAAATAAGAAAGAATAACTCAATTTTGCGTTGACACA ATCTTAATAGTATAGGTAATAGCTTAGTTATGTATATATAAATTATAAAAACTTGTGGAGAGTT GTTCCTTAAGATTTACAGTGAAGATTAGAGAAGATTAAGTTTTGAGAGAGTGTCTATATCAAAT ACAGAAGAGTTGGTCCTTATTCGTTTGTAAGTTCTAGTAATTATCAATTTGATTGGAATCATTA GAACGACAGAAAGGTGAACAATTTTGTTTCTAAAAGAGTGCAGAAACTAGATAAAAATAAAACA CATTTGCTTACGTGAAGATGAAGTTTTATATGAAGAACGCCTCATTTGTTTGGTTCATCTATTA TCTATATATATGATTTTTGGTTTTATTTCATATGAAAATTAACTGTAAATATAGCCGGCCCCAA AGCCAGATGTATAAACTTATCTTTTCTGGAACTTTATAATTTCTACTTTTTATTTTCTTTGTTG CCAATCATTTCGAATATTACCTTGCAAGAATAATTGCAAACAAAAAAAGAGGGTAAAAAAGGTC TCAAATTGAATCCACTACCTTCTTAAATTGATTCCACCAAAATTTATCATTTTGTTCTAATGGA GTGCATGTGGCCCGAAACTTGTCTAATCTGAGCACAAAGCAGGTCATTGGACACGCTTTGGTTC ATATTGTCAGGTTTATCACGTTACTCATTGAGATTTTTCTTATGGAAAAAACAGAGTTGAGGTT ACATTATTATTTTAAATCTCAACAAATTAATAACAGCGCATTTCAAATTCCAAGAGCTCGTTCA TGGTATAGAGATGGAAAATAGTGAGCTCAAGAACTAAACGAGTTAGATAGATTCACTAGCATCG ACGTCGACGTCATGGACTAACGATGATATTCTCATCCATTGGATCCTCCCAAAACTCACGCATA GGCTCATTAACAGGATACACAATGAGCTCACGAACATTCATAGGTTGGATAACATTTGGGTCCG CTCCAAAAGATAAGATGATGAGAAAACGCTTCTTGTGCCTTCTTTTTTTAATTATGGAATTACC TTTTAATATGTGGTTGACAAAAAAAAGAAATAAATTTATGTAAAAGTTTTGTTTCTTTTAAATA AAAGATTTGCAAGGGGTAAGAGTTGCAGAGATCAATCTTTTATTATGGAGGAAAACTCACTAGA GAAACATGAAAACATTGGAAATTAAAACTACTCAAGATTCCGATATTGATCCAGTTATAATTTG ACTCATAACCCTTATAGAAACCCCGATCGATCCCTAAATATTGATTTTAGAGACTCAGTAATAC TCGTAACCGCGGCTCTCCCTGAGTTGAACGGTGGCTGACGTTGGGGGCACCCAAGACTCACGCA TAGGTTCATCGGCAGGGTAAACGACAAGCTCACGGATGTTCATCGGTTGGATAACATTTGTATC GGCTCCAAAAAGAAGATGACCAAACATCTCTTGCGCCTTCTCAGTGTTGTGACGTCCGTCGAAG AATAGGTAAGACCGTTGGTACTCGCATAGCCTCGAATGTACGTTAGGAAAACCGCAACCATAAG CATCATGTGTCCCAACTCCGCAGCACGATGCGTTCGTAACGAAAAATCCTAAGAATGGCAAATA TTAAACACATGGTATTAGAAGTTATAAAAAAATTTAAAAATGAAATTAAACCATGATAATTAAC CAACTCACGGAAGTTTTGGTTCCTCTGCGTCCTAGTAAGAATCGCGTTGTAGAAATCAAAGACG GTGAATTGGAAAGGAGCTGATGCAGGAGCTGTTCTAGCCAATTCGTTCAACATCGGTCCAATTT TTTCGTTGTGTTGTTTAGCCAAATCGTTGAGTTTCTCATAGCATTGATCCATCCCGGTGTTGAA CTCTTGTCTGACGATGGGTAAGCAACCCAATGGAGCTAGGGTTTGGATCACAAATTTACTCGCT CCTGATGAATACAACAAGCTGATATCGTTCTTTAACTTGTTGGTCACGGAAGTGACAAAAGCTT GTTGAGTAGATGCATCGGCGTTAGGGTTGTTCTTGGTGAAATTCAAGTAATCGTTTGCACCAAT GTATATCATAAACACTGACTTCTTCACGAAATCATCATTCCAATTTGCTGCTTTCATTTGATTG AACTTTCTCACTTGTTGATTCAGAGTCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.555751867

Conservation Information
Conserved circRNAs	NA
PMCS	0.555751867

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 1_circ_ag.4

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