Plant Circular RNA Database

Detail information of 1_circ_ag.1

			
						 General Information
					
						CircRNA Name
						1_circ_ag.1
					
						ID in PlantcircBase
						ath_circ_000083
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 211474-215960  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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  
						
							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
						NA

General Information
CircRNA Name	1_circ_ag.1
ID in PlantcircBase	ath_circ_000083
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 211474-215960 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	2
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	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	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  
						
							CGTTTCTTGAGATTTCTCCAGTCACGCAACAATGTCAAGCTAGTCTCTGCTCGTGTTCTTCCTT
GTGACACCGTTGAGCTCAATTTCTCCAAAAACCCTAagttggtttatagcccgacgagcataat
gtttgtgaacataccgagcatttcaaagctgcaatggcatccgtttacgataacttccagtagc
aaactcga

									
								

					

						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
						
							AGTTGGTTTATAGCCCGACGAGCATAATGTTTGTGAACATACCGAGCATTTCAAAGCTGCAATG
GCATCCGTTTACGATAACTTCCAGTAGCAAACTCGAACCAGAGAAGCTAAGTATTGTTATCAAG
AAAGAAGGCAAATGGTCAACTAAGCTTCACCAGAGGCTTTCTTCTTCTGATCAGATCGACCGAC
TTGCTGTTTCTGTAGAAGGTCCTTACGGCCCTGCTTCCGCCGATTTCTTAAGGTGATTTGTTTA
TATACACTTTCTCAATCACCTATCTAATAACTTTATATTCAGATTTGTTAAGAGTCCTGGAAAC
TTGATTGACTTGCATTTCAAGAAACATTGATTTCATACTTTTTTTTTTTTTTGCTTTCTAGGCA
TGAAGCTTTGGTTATGGTGTGCGGAGGAAGCGGGATAACTCCGTTTATCTCTGTTATTCGTGAT
TTGATCGCCACAAGCCAAAAGGAAACATGCAAAATCCCAAAAATAACTCTCATTTGTGCGTTTA
AGAAGTCTTCAGAGATCTCCATGCTCGATCTTGTCTTGCCATTATCCGGTCTTGAGACTGAACT
ATCCTCCGACATTAACATCAAAATCGAAGCCTTCATAACCCGAGATAATGATGCAGGAGATGAA
GCAAAAGCTGGGAAAATCAAAACTCTCTGGTTCAAACCAAGTCTTTCAGACCAATCCATCTCAT
CAATCCTCGGACCAAACTCATGGCTTTGGCTCGGTGCAATTCTCGCATCTTCGTTCTTGATCTT
CATGATAATTATTGGTATCATCACTAGGTATTACATTTACCCGATCGACCACAACACCAACAAG
ATCTATTCTTTGACTTCAAAAACCATCATATATATCTTGGTCATCTCCGTGAGCATAATGGCGA
CTTGTAGTGCGGCTATGTTGTGGAACAAGAAGAAGTATGGTAAAGTTGAAAGTAAACAGGTCCA
AAACGTCGACCGTCCATCTCCAACATCTTCTCCTACCTCATCATGGGGTTACAATTCCTTGAGA
GAAATCGAAAGTACGCCACAAGAATCGCTCGTGCAACGCACCAATCTGCATTTTGGAGAAAGAC
CTAATCTCAAGAGTAATATATACATGACCTTCTTTTAATTTCTCTATCTCTATCTTATATATAA
GGAATTGTTATTCTAATTATGTTTTTTGTTGGTTTATATGAGCAGAACTTCTACTTGATGTGGA
AGGTTCGAGTGTGGGAGTTCTTGTTTGTGGTCCTAAGAAGATGAGACAAAAGGTTGCGGAAATA
TGTTCCTCTGGTTTGGCTGAGAATCTTCATTTTGAATCTATCAGTTTCAGCTGGTGATTGCGTA
TATAACTCTGTTTTCACTATGTGTTGTGCAATTTGCTTGAGTTGCAAGTTAATAAGGTGGCCCT
GTGATTTGACCTATCTTTGTGTGCTTTACATTGACTTTTCCTGTTTTTTGTTTTTCTTTATCCT
CTTCTAGGAATATTCAGTGTTAAAAAAAAAACTTCCTTTCAAAAGTTCCGGAATATCCTTTTTT
TGTTTGTAACACAAGGCATACAGCTTTTGTAAATTGTAAATGTTGAAATATAATACTCATGTTG
GGTCATATATATGATTTTATCTCTATTTTTCAGTTAAACATACTTACGAAAAAGTCAATTTGCT
CGAAACGAGTTGGGTTATACACAGATGTGAGCTACATGTAAATTAATATTTGGATCTATCAGAA
TTTATCTGTCAAATACAGAAATACTATCTTGCAGATAGCACAAATTACCTAATTGTTGGTTAAA
AAGACAAGAAGAAGTTACGTGAACATAAAAAAAAAAAACCGTTTCAATTGACATGTCACTAATT
ATTCGATTTAAGTAAGAGGAAGTACAAGAACAAATTAAAGAACTCACCTATATATACATCCGTT
TATTTAAAATCTGTGTTATTGTGTAACTCTGCTACAATTTAGTGGGTAACTAACAAAAAATATC
ATGGTTAAATTTGGTGTTCTGAGGAAATTTAATGTAAAATTCATAAATTTACGTGTGATTTTTT
GATAATTGATTATTCAAAACTCAGTACAAGGAATAAAATCGAAAAAGAAAAAAAAACGAAAAGA
TAATAGAAATATACGTCTACACGCATCGGCGTACAAACTCAATGATTCTGCTTTCCGTTGAATT
TGCTAATTTTAAGCCCAAAACTATAGAATTGCGTTTTCAATGTGAAATGAGGAAATTACACACT
TTACCTAGACTCTTCCACGAGTCAAGCCTGTTTTGTAAGTCAGCAGTAAAATGAAGCTGTAAAT
CACAAATTAATTATAAAAAGATTCAATTATAATTTCTCTGGATAATATTATTATTTTAAAATAA
TAATAAAATAATTTCTTATTGGTTTATTCACCAGACCATATTTTCATATAAATTTAATTATTAT
TTTAAGAAAATAATATTATGCATAGAAAAATGACTTAAATATCATTTCTTTTATATAAGAGTAT
ATTATTTTATATATATACTCTATATCTTTAAACATCTCAAGTTCTCAACATATTTAATTATTGG
ATCTTTTCTGCATTTAGCATAAAACTACTAATTACATTGGTGTAATTAGCATATATATATGCTG
GAAAAAAATATCTTTCTATATATATGCTGGAAACAAATATAGCACATATATATGGGTTTTGTAA
AATTCATTGCAAACTCCATTTCGCTTTGTTTTTTCTTCTCATTTCTTGGAAGTTCATCTCTGGT
GCCATGGGAGTAGGAGAAATGAATAAGGAAGTGATTGATAAGGTGATTAAGTTCTTGATGATGG
TGATTTTGATGGGGACTATAGTGATCTGGATTATGATGCCAACTTCTACCTACAAGGAAATCTG
GTTAACCTCTATGCGTGCCAAGCTCGGCAAATCGATATACTATGGGAGACCAGGTAATTTCACT
CGATACAGATCTAAAATTATTTATACGAATCCGTTACATATAATGGTTTTCTTATATTATAGGA
GTGAATCTTTTGGTTTACATGTTCCCGATGATTCTACTGGCTTTTCTGGGATGTATCTACCTTC
ACTTGAAGAAATCAACAACTGTTAATCAATTTAACAGGTAATTAAAAGCTAACGACTGCTCACT
CTTTAGTTAACAGCTTTTAGTTTTTTTTGTTAATATAGATTCTTTTTATTAGTTTATTTTATTT
TCATTTTTTTGTAAAATTTAAAGCGGAGTGGAGAAGAAGAGAGCCAAGTTTGGTGCATTGAGAA
GACCAATGTTAGTGAACGGACCGTTAGGAATAGTGACAGTAACTGAGGTTATGTTCTTGACGAT
GTTCATGGCTCTTCTTCTTTGGAGCTTAGCTAATTACATGTACAGGACGTTTGTCAACGTCACT
TCTGAATCAGCAGCAACTGACGGAAATAACCTGTAAGTTTTAATTTATATAATGAGTTTTGTGC
ATGAACATAATTATTTTGTACGTATATGTAAATTCTTCATATTTAGTGATCAATCTAGATTCAA
TCCTATTTGCAGGGAATATTTTCTTTCCTGATAATATTGTGAGATATATGATGAAAATAAGAGT
ATAAATGAACTTTTCTATTTTTCACTGATATAATGATGCATCTTAAATTTATTGGGAAATTCTC
ATAAATTAATTTTTTCTTATAAGTTTTTTTAATTGATTGACCCATAATTTTCATAATCACTCAT
ATCATATCTTTAACAATATGTCCTTTTTATAAACAACTTTTGCAAAATGACATTGACATGTACC
ATTAGTTAAGCTATGTGACAAAACAAGTTTGGCTTTTTGTGTTTGTTTTATGGCAAAACTAAAA
AAGATGGCAAGCGAGGCTGGATTTAATAGCAGTACGGATAGGTATAGTAGGGAACATATGCTTG
GCGTTCTTGTTCTATCCAGTGGCTCGTGGCTCGTCGTTGCTGGCTGCAGTGGGGCTTACGTCTG
AGTCAAGCATCAAGTACCATATATGGTTGGGGCACTTGGTCATGATCATATTCACCAGCCATGG
TCTTTGTTACTTTATCTATTGGATATCCAAGAATCAATTAGTCTCAAAGGTCACTCTTTTTCTT
TTTTACATTATTCGTCGATATTGCTCTATAATTAATGCCCTAATTAATCGTTCGTGTAAATAGA
TGTTGGAGTGGGATAGGACCGCTGTCTCGAATTTAGCCGGAGAGATAGCTCTGGTGGCTGGACT
TATGATGTGGGTCACCACATATCCTAAGATAAGGAGGAGATTGTTCGAAGTCTTCTTCTATAGT
CATTATCTCTATATCGTCTTCATGCTCTTCTTCGTCTTCCACGTCGGCATCTCTCATGCGTTGA
TCCCTTTACCCGGTTTCTACATCTTCCTCGTCGATCGTTTCTTGAGATTTCTCCAGTCACGCAA
CAATGTCAAGCTAGTCTCTGCTCGTGTTCTTCCTTGTGACACCGTTGAGCTCAATTTCTCCAAA
AACCCTA
						
					

			
		

Sequences
Splice junction sequence	CGTTTCTTGAGATTTCTCCAGTCACGCAACAATGTCAAGCTAGTCTCTGCTCGTGTTCTTCCTT GTGACACCGTTGAGCTCAATTTCTCCAAAAACCCTAagttggtttatagcccgacgagcataat gtttgtgaacataccgagcatttcaaagctgcaatggcatccgtttacgataacttccagtagc aaactcga
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	AGTTGGTTTATAGCCCGACGAGCATAATGTTTGTGAACATACCGAGCATTTCAAAGCTGCAATG GCATCCGTTTACGATAACTTCCAGTAGCAAACTCGAACCAGAGAAGCTAAGTATTGTTATCAAG AAAGAAGGCAAATGGTCAACTAAGCTTCACCAGAGGCTTTCTTCTTCTGATCAGATCGACCGAC TTGCTGTTTCTGTAGAAGGTCCTTACGGCCCTGCTTCCGCCGATTTCTTAAGGTGATTTGTTTA TATACACTTTCTCAATCACCTATCTAATAACTTTATATTCAGATTTGTTAAGAGTCCTGGAAAC TTGATTGACTTGCATTTCAAGAAACATTGATTTCATACTTTTTTTTTTTTTTGCTTTCTAGGCA TGAAGCTTTGGTTATGGTGTGCGGAGGAAGCGGGATAACTCCGTTTATCTCTGTTATTCGTGAT TTGATCGCCACAAGCCAAAAGGAAACATGCAAAATCCCAAAAATAACTCTCATTTGTGCGTTTA AGAAGTCTTCAGAGATCTCCATGCTCGATCTTGTCTTGCCATTATCCGGTCTTGAGACTGAACT ATCCTCCGACATTAACATCAAAATCGAAGCCTTCATAACCCGAGATAATGATGCAGGAGATGAA GCAAAAGCTGGGAAAATCAAAACTCTCTGGTTCAAACCAAGTCTTTCAGACCAATCCATCTCAT CAATCCTCGGACCAAACTCATGGCTTTGGCTCGGTGCAATTCTCGCATCTTCGTTCTTGATCTT CATGATAATTATTGGTATCATCACTAGGTATTACATTTACCCGATCGACCACAACACCAACAAG ATCTATTCTTTGACTTCAAAAACCATCATATATATCTTGGTCATCTCCGTGAGCATAATGGCGA CTTGTAGTGCGGCTATGTTGTGGAACAAGAAGAAGTATGGTAAAGTTGAAAGTAAACAGGTCCA AAACGTCGACCGTCCATCTCCAACATCTTCTCCTACCTCATCATGGGGTTACAATTCCTTGAGA GAAATCGAAAGTACGCCACAAGAATCGCTCGTGCAACGCACCAATCTGCATTTTGGAGAAAGAC CTAATCTCAAGAGTAATATATACATGACCTTCTTTTAATTTCTCTATCTCTATCTTATATATAA GGAATTGTTATTCTAATTATGTTTTTTGTTGGTTTATATGAGCAGAACTTCTACTTGATGTGGA AGGTTCGAGTGTGGGAGTTCTTGTTTGTGGTCCTAAGAAGATGAGACAAAAGGTTGCGGAAATA TGTTCCTCTGGTTTGGCTGAGAATCTTCATTTTGAATCTATCAGTTTCAGCTGGTGATTGCGTA TATAACTCTGTTTTCACTATGTGTTGTGCAATTTGCTTGAGTTGCAAGTTAATAAGGTGGCCCT GTGATTTGACCTATCTTTGTGTGCTTTACATTGACTTTTCCTGTTTTTTGTTTTTCTTTATCCT CTTCTAGGAATATTCAGTGTTAAAAAAAAAACTTCCTTTCAAAAGTTCCGGAATATCCTTTTTT TGTTTGTAACACAAGGCATACAGCTTTTGTAAATTGTAAATGTTGAAATATAATACTCATGTTG GGTCATATATATGATTTTATCTCTATTTTTCAGTTAAACATACTTACGAAAAAGTCAATTTGCT CGAAACGAGTTGGGTTATACACAGATGTGAGCTACATGTAAATTAATATTTGGATCTATCAGAA TTTATCTGTCAAATACAGAAATACTATCTTGCAGATAGCACAAATTACCTAATTGTTGGTTAAA AAGACAAGAAGAAGTTACGTGAACATAAAAAAAAAAAACCGTTTCAATTGACATGTCACTAATT ATTCGATTTAAGTAAGAGGAAGTACAAGAACAAATTAAAGAACTCACCTATATATACATCCGTT TATTTAAAATCTGTGTTATTGTGTAACTCTGCTACAATTTAGTGGGTAACTAACAAAAAATATC ATGGTTAAATTTGGTGTTCTGAGGAAATTTAATGTAAAATTCATAAATTTACGTGTGATTTTTT GATAATTGATTATTCAAAACTCAGTACAAGGAATAAAATCGAAAAAGAAAAAAAAACGAAAAGA TAATAGAAATATACGTCTACACGCATCGGCGTACAAACTCAATGATTCTGCTTTCCGTTGAATT TGCTAATTTTAAGCCCAAAACTATAGAATTGCGTTTTCAATGTGAAATGAGGAAATTACACACT TTACCTAGACTCTTCCACGAGTCAAGCCTGTTTTGTAAGTCAGCAGTAAAATGAAGCTGTAAAT CACAAATTAATTATAAAAAGATTCAATTATAATTTCTCTGGATAATATTATTATTTTAAAATAA TAATAAAATAATTTCTTATTGGTTTATTCACCAGACCATATTTTCATATAAATTTAATTATTAT TTTAAGAAAATAATATTATGCATAGAAAAATGACTTAAATATCATTTCTTTTATATAAGAGTAT ATTATTTTATATATATACTCTATATCTTTAAACATCTCAAGTTCTCAACATATTTAATTATTGG ATCTTTTCTGCATTTAGCATAAAACTACTAATTACATTGGTGTAATTAGCATATATATATGCTG GAAAAAAATATCTTTCTATATATATGCTGGAAACAAATATAGCACATATATATGGGTTTTGTAA AATTCATTGCAAACTCCATTTCGCTTTGTTTTTTCTTCTCATTTCTTGGAAGTTCATCTCTGGT GCCATGGGAGTAGGAGAAATGAATAAGGAAGTGATTGATAAGGTGATTAAGTTCTTGATGATGG TGATTTTGATGGGGACTATAGTGATCTGGATTATGATGCCAACTTCTACCTACAAGGAAATCTG GTTAACCTCTATGCGTGCCAAGCTCGGCAAATCGATATACTATGGGAGACCAGGTAATTTCACT CGATACAGATCTAAAATTATTTATACGAATCCGTTACATATAATGGTTTTCTTATATTATAGGA GTGAATCTTTTGGTTTACATGTTCCCGATGATTCTACTGGCTTTTCTGGGATGTATCTACCTTC ACTTGAAGAAATCAACAACTGTTAATCAATTTAACAGGTAATTAAAAGCTAACGACTGCTCACT CTTTAGTTAACAGCTTTTAGTTTTTTTTGTTAATATAGATTCTTTTTATTAGTTTATTTTATTT TCATTTTTTTGTAAAATTTAAAGCGGAGTGGAGAAGAAGAGAGCCAAGTTTGGTGCATTGAGAA GACCAATGTTAGTGAACGGACCGTTAGGAATAGTGACAGTAACTGAGGTTATGTTCTTGACGAT GTTCATGGCTCTTCTTCTTTGGAGCTTAGCTAATTACATGTACAGGACGTTTGTCAACGTCACT TCTGAATCAGCAGCAACTGACGGAAATAACCTGTAAGTTTTAATTTATATAATGAGTTTTGTGC ATGAACATAATTATTTTGTACGTATATGTAAATTCTTCATATTTAGTGATCAATCTAGATTCAA TCCTATTTGCAGGGAATATTTTCTTTCCTGATAATATTGTGAGATATATGATGAAAATAAGAGT ATAAATGAACTTTTCTATTTTTCACTGATATAATGATGCATCTTAAATTTATTGGGAAATTCTC ATAAATTAATTTTTTCTTATAAGTTTTTTTAATTGATTGACCCATAATTTTCATAATCACTCAT ATCATATCTTTAACAATATGTCCTTTTTATAAACAACTTTTGCAAAATGACATTGACATGTACC ATTAGTTAAGCTATGTGACAAAACAAGTTTGGCTTTTTGTGTTTGTTTTATGGCAAAACTAAAA AAGATGGCAAGCGAGGCTGGATTTAATAGCAGTACGGATAGGTATAGTAGGGAACATATGCTTG GCGTTCTTGTTCTATCCAGTGGCTCGTGGCTCGTCGTTGCTGGCTGCAGTGGGGCTTACGTCTG AGTCAAGCATCAAGTACCATATATGGTTGGGGCACTTGGTCATGATCATATTCACCAGCCATGG TCTTTGTTACTTTATCTATTGGATATCCAAGAATCAATTAGTCTCAAAGGTCACTCTTTTTCTT TTTTACATTATTCGTCGATATTGCTCTATAATTAATGCCCTAATTAATCGTTCGTGTAAATAGA TGTTGGAGTGGGATAGGACCGCTGTCTCGAATTTAGCCGGAGAGATAGCTCTGGTGGCTGGACT TATGATGTGGGTCACCACATATCCTAAGATAAGGAGGAGATTGTTCGAAGTCTTCTTCTATAGT CATTATCTCTATATCGTCTTCATGCTCTTCTTCGTCTTCCACGTCGGCATCTCTCATGCGTTGA TCCCTTTACCCGGTTTCTACATCTTCCTCGTCGATCGTTTCTTGAGATTTCTCCAGTCACGCAA CAATGTCAAGCTAGTCTCTGCTCGTGTTCTTCCTTGTGACACCGTTGAGCTCAATTTCTCCAAA AACCCTA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.465631271

Conservation Information
Conserved circRNAs	NA
PMCS	0.465631271

			
						 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.1

Address

Any questions?

Supported by