Plant Circular RNA Database

Detail information of 1_circ_ig.2

			
						 General Information
					
						CircRNA Name
						1_circ_ig.2
					
						ID in PlantcircBase
						ath_circ_004731
					
						Alias
						1:10091486-10093185
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10091486-10093185  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.3 1_circ_ig.4 						
					
						Support reads
						2
					
						Tissues
						root
					
						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.2
ID in PlantcircBase	ath_circ_004731
Alias	1:10091486-10093185
Organism	Arabidpsis thaliana
Position	chr1: 10091486-10093185 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.3 1_circ_ig.4
Support reads	2
Tissues	root
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  
						
							CTGTTTCACATCCAGATCCAATCAATAAACTTTTTAACTAGTACACTTCATGTAGGGAAGACCG
TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAGctaatggacttcatatggagaggccttc
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
TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAG
						
					

			
		

Sequences
Splice junction sequence	CTGTTTCACATCCAGATCCAATCAATAAACTTTTTAACTAGTACACTTCATGTAGGGAAGACCG TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAGctaatggacttcatatggagaggccttc 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 TCATGTTTTGTAAGCTGTTGGATTCACAAAGAATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135543177

Conservation Information
Conserved circRNAs	NA
PMCS	0.135543177

			
						 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.2

Address

Any questions?

Supported by