Plant Circular RNA Database

Detail information of 1_circ_ig.3

			
						 General Information
					
						CircRNA Name
						1_circ_ig.3
					
						ID in PlantcircBase
						ath_circ_004732
					
						Alias
						1:10091486-10094049
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10091486-10094049  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							1_circ_ig.2 1_circ_ig.4 						
					
						Support reads
						1/1/1
					
						Tissues
						root;leaf
					
						Exon boundary  
						
							NA-NA							"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_ig.3
ID in PlantcircBase	ath_circ_004732
Alias	1:10091486-10094049
Organism	Arabidpsis thaliana
Position	chr1: 10091486-10094049 JBrowse»
Reference genome	TAIR10.38
Type	ig-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	1_circ_ig.2 1_circ_ig.4
Support reads	1/1/1
Tissues	root;leaf
Exon boundary	NA-NA "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  
						
							GTGCATAATGCAAAGGAAAAGAAGAACATACCGCTCTTTCACATCCGATCAATAAATATCTTAA
CCAGTGCTCTTCACATCTGGAGGACCAACGAAGGAGctaatggacttcatatggagaggccttc
atgctttgtaagctgctggatacccaaggaaagagctgcagaagcagcaaattaattgggatta
agcatcga

									
								

					

						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
						
							CTAATGGACTTCATATGGAGAGGCCTTCATGCTTTGTAAGCTGCTGGATACCCAAGGAAAGAGC
TGCAGAAGCAGCAAATTAATTGGGATTAAGCATCGAACACAAATGCAAACAGATGCAACAATTC
TCTTAAAGAAAGAAAAGAATGTAAATGGAAATCATTAACTAAACAACATAAGAAATAGGAGCAT
TTGGTTTATTGGTATGGTTCTCCCTTTGGCTGCAAGAGGCCCGAGTTCAATTCTCAGAAAGACC
CCAGGTGTTTTTATTTTATTTTATAACCATGTTCTAGGGTGCATAAAACGGCTCAGCAAAGAGG
TGGCTCTGATCAGGATTCAAGCAGTTAAATGTGATAACCCTTATTTCCTGTAATGTAGTCGCTA
GATAAAGAAGTGGACATTTTTCACCAATGCAATCTCTCCTAAGATCTCCTCTTATCCTTGACAA
ATACTTATCAAACACTGATCAAAATTCAAGCGGTTCCCACTTTACAGTGAGACCATAAAGAACA
TTCCAAAGGGTGCATCAAACACATCTTTGATGTCTGCAGAATTTGTCAATTGATTGAAAGCTTT
TGTATCTCATAAGATTCCTATCAGATGAACTACAAAAAAGCACATATACGAAAAACAACTCCTA
CCGAAAAAATATTCAAGATTTCAATATAGATAACATATAGATTCATCAGGAACATTTAGCTTAA
AGGGTCTGGACTAACTGGATTTATCAAGAAGCCAAGCAATAGCATTATTGTTACATCAGATTCA
AACAGATCCTAATGCCGTGTTTACAGCTTGTACTGCAGATATAATGCTTGAAATGGATTACATC
AACAACAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTTGGGTGCGAGAGGTCCCGAGTTCGA
TTCTCGGAATGCCCCTTTTAAATTTTGCAAGGTATGTGGACTAAATGACAGCTAAGAATTTTTC
CATATAGAATTTTCTCTAATACAGCAATTCAACAATGATTGCCTTACATTTCAACAATATTTGA
ATTATAGACAATCTGCCTCCAGTATTTGACAGTCAACTTAACGATCTAGATCTAAAATGTAGCT
TTATTTTTAGATTATCTAAACAAGTAAATATTTTCTCATCAGATTCATGAATCAGTTAGAAGAG
TTTGAGCTTACACTAACTGTATGTTGCCAGCGATGTCAAGAATAAATCCTCAAGAGGAAAAGTA
AGGCGGGTAAATTTCCTGTAAAAGATGGAACCATATATTATTTCTCACACAAAGGATCAAAGAA
CAATGAAATATTTGAATAGAACTAAATCAACAACAGGGCATTTGGTCTAGTGGTATGATTCTCG
CTTTGGGTGCGAGAGGTCCCGAGTTCGATTCTCGGAATGCCCCCTTGACCTTTTCTATAGTGTA
TGATTTAGATGCAAGCTGAAAATGGCTTATGATATTATTATTTTTTTAGTATTTAGATTTTCCA
CAGACCTCGTTCAAGGATCGAGGACCATATATTTCCATTTCATTTTCAGTAAGAGAAAATCAAA
AACAAAACCCTCCCCACAGTTTCATTATTAAGTGTTTAATGCAATAGAAGAGAAGAGCATACCG
CTGTTTCACATCCAGATCCAATCAATAAACTTTTTAACTAGTACACTTCATGTAGGGAAGACCG
TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAGCTGCAGAAACAGCAAACGAATTGTGATT
AAGTATGTAATGGAAATGCAGAGGGAAGCAACAAATCTCTAAGAGAAAGGAGAGAATGCTAATA
GAATGCATTAACTGAACAATTATAATAAGCAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTT
GGGTGCGAGAGGTCCCGAGTTCGATTCTCGGAATGCCCCTTTGACTTTTTGGAAACCAAAGTTC
TAAACGCCAGCTAACATTTCATCAATTCTAAATTTCCAGACTATCCACCTTTACTAATAAGCCC
TGATGGCTGAAAGTCAACTGATATAGCCCAGATCTAAAAAGTAATTTCTGTCTTAGATGATCTA
AACAAGAAAACATTCTAATATCATATTCAAAAATAAATTAAAGAAAAATTTGAACTTACTGCAT
CTTGCCTGCTTCATCACGAATAGAACTCTCAAAAGGTAAAAAAAAAGCATCAAGAGTGAATTTC
CTGTAATAACAAAGTCAAGCATGAATTCTCTTTTCCACAGGATTACAACAATGCAATGCTTCAA
TGGGAATTAAATCAACAACAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTTGGGTGCGAGAG
GTCCCGAGTTCGATTCTCGGAATGCCCCACTATCTTTTTAAGTAGTTGATCTAAATTCAAGTAG
ATAATTGCTTAGAAAAATCTGATCTTTGTTTAGTCATAGTTATGTCACAGATCTTGATAAACCA
TATATTACTCTTTTATTTCAGCAAGAGAATAAGTGCATAATGCAAAGGAAAAGAAGAACATACC
GCTCTTTCACATCCGATCAATAAATATCTTAACCAGTGCTCTTCACATCTGGAGGACCAACGAA
GGAG
						
					

			
		

Sequences
Splice junction sequence	GTGCATAATGCAAAGGAAAAGAAGAACATACCGCTCTTTCACATCCGATCAATAAATATCTTAA CCAGTGCTCTTCACATCTGGAGGACCAACGAAGGAGctaatggacttcatatggagaggccttc atgctttgtaagctgctggatacccaaggaaagagctgcagaagcagcaaattaattgggatta agcatcga
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	CTAATGGACTTCATATGGAGAGGCCTTCATGCTTTGTAAGCTGCTGGATACCCAAGGAAAGAGC TGCAGAAGCAGCAAATTAATTGGGATTAAGCATCGAACACAAATGCAAACAGATGCAACAATTC TCTTAAAGAAAGAAAAGAATGTAAATGGAAATCATTAACTAAACAACATAAGAAATAGGAGCAT TTGGTTTATTGGTATGGTTCTCCCTTTGGCTGCAAGAGGCCCGAGTTCAATTCTCAGAAAGACC CCAGGTGTTTTTATTTTATTTTATAACCATGTTCTAGGGTGCATAAAACGGCTCAGCAAAGAGG TGGCTCTGATCAGGATTCAAGCAGTTAAATGTGATAACCCTTATTTCCTGTAATGTAGTCGCTA GATAAAGAAGTGGACATTTTTCACCAATGCAATCTCTCCTAAGATCTCCTCTTATCCTTGACAA ATACTTATCAAACACTGATCAAAATTCAAGCGGTTCCCACTTTACAGTGAGACCATAAAGAACA TTCCAAAGGGTGCATCAAACACATCTTTGATGTCTGCAGAATTTGTCAATTGATTGAAAGCTTT TGTATCTCATAAGATTCCTATCAGATGAACTACAAAAAAGCACATATACGAAAAACAACTCCTA CCGAAAAAATATTCAAGATTTCAATATAGATAACATATAGATTCATCAGGAACATTTAGCTTAA AGGGTCTGGACTAACTGGATTTATCAAGAAGCCAAGCAATAGCATTATTGTTACATCAGATTCA AACAGATCCTAATGCCGTGTTTACAGCTTGTACTGCAGATATAATGCTTGAAATGGATTACATC AACAACAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTTGGGTGCGAGAGGTCCCGAGTTCGA TTCTCGGAATGCCCCTTTTAAATTTTGCAAGGTATGTGGACTAAATGACAGCTAAGAATTTTTC CATATAGAATTTTCTCTAATACAGCAATTCAACAATGATTGCCTTACATTTCAACAATATTTGA ATTATAGACAATCTGCCTCCAGTATTTGACAGTCAACTTAACGATCTAGATCTAAAATGTAGCT TTATTTTTAGATTATCTAAACAAGTAAATATTTTCTCATCAGATTCATGAATCAGTTAGAAGAG TTTGAGCTTACACTAACTGTATGTTGCCAGCGATGTCAAGAATAAATCCTCAAGAGGAAAAGTA AGGCGGGTAAATTTCCTGTAAAAGATGGAACCATATATTATTTCTCACACAAAGGATCAAAGAA CAATGAAATATTTGAATAGAACTAAATCAACAACAGGGCATTTGGTCTAGTGGTATGATTCTCG CTTTGGGTGCGAGAGGTCCCGAGTTCGATTCTCGGAATGCCCCCTTGACCTTTTCTATAGTGTA TGATTTAGATGCAAGCTGAAAATGGCTTATGATATTATTATTTTTTTAGTATTTAGATTTTCCA CAGACCTCGTTCAAGGATCGAGGACCATATATTTCCATTTCATTTTCAGTAAGAGAAAATCAAA AACAAAACCCTCCCCACAGTTTCATTATTAAGTGTTTAATGCAATAGAAGAGAAGAGCATACCG CTGTTTCACATCCAGATCCAATCAATAAACTTTTTAACTAGTACACTTCATGTAGGGAAGACCG TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAGCTGCAGAAACAGCAAACGAATTGTGATT AAGTATGTAATGGAAATGCAGAGGGAAGCAACAAATCTCTAAGAGAAAGGAGAGAATGCTAATA GAATGCATTAACTGAACAATTATAATAAGCAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTT GGGTGCGAGAGGTCCCGAGTTCGATTCTCGGAATGCCCCTTTGACTTTTTGGAAACCAAAGTTC TAAACGCCAGCTAACATTTCATCAATTCTAAATTTCCAGACTATCCACCTTTACTAATAAGCCC TGATGGCTGAAAGTCAACTGATATAGCCCAGATCTAAAAAGTAATTTCTGTCTTAGATGATCTA AACAAGAAAACATTCTAATATCATATTCAAAAATAAATTAAAGAAAAATTTGAACTTACTGCAT CTTGCCTGCTTCATCACGAATAGAACTCTCAAAAGGTAAAAAAAAAGCATCAAGAGTGAATTTC CTGTAATAACAAAGTCAAGCATGAATTCTCTTTTCCACAGGATTACAACAATGCAATGCTTCAA TGGGAATTAAATCAACAACAGGGCATTTGGTCTAGTGGTATGATTCTCGCTTTGGGTGCGAGAG GTCCCGAGTTCGATTCTCGGAATGCCCCACTATCTTTTTAAGTAGTTGATCTAAATTCAAGTAG ATAATTGCTTAGAAAAATCTGATCTTTGTTTAGTCATAGTTATGTCACAGATCTTGATAAACCA TATATTACTCTTTTATTTCAGCAAGAGAATAAGTGCATAATGCAAAGGAAAAGAAGAACATACC GCTCTTTCACATCCGATCAATAAATATCTTAACCAGTGCTCTTCACATCTGGAGGACCAACGAA GGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.118785149

Conservation Information
Conserved circRNAs	NA
PMCS	0.118785149

			
						 Functional Information
					
						Coding potential
						NA
					
						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	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of 1_circ_ig.3

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