Plant Circular RNA Database

Detail information of 3_circ_igg.28

			
						 General Information
					
						CircRNA Name
						3_circ_igg.28
					
						ID in PlantcircBase
						ath_circ_021739
					
						Alias
						3:4821180-4822723
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4821180-4822723  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 3_circ_ag.6 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.16 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15 						
					
						Support reads
						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	3_circ_igg.28
ID in PlantcircBase	ath_circ_021739
Alias	3:4821180-4822723
Organism	Arabidpsis thaliana
Position	chr3: 4821180-4822723 JBrowse»
Reference genome	TAIR10.38
Type	igg-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 3_circ_ag.6 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.16 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15
Support reads	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  
						
							AACAGGAATGTGGTTGAGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTC
TCACTGTAGACACCCCAAGGCTAGGCCGCAGAGAGTcttattgaagaagaatgtaagcgaattc
atccttcactttgtgctgggctaagtattgcatcgaaaagcccaaaataatttggctcacgaat
tcgaaact

									
								

					

						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
						
							CTTATTGAAGAAGAATGTAAGCGAATTCATCCTTCACTTTGTGCTGGGCTAAGTATTGCATCGA
AAAGCCCAAAATAATTTGGCTCACGAATTCGAAACTCTTGGATTTATGCACTTTTCTGAAAAAA
AAAGAAAAACGATTGGTTTACGAATTACTACTATTTTTCTACGAGATTAAGAACGATAATATGT
AAGAAAAATCTAAGACACACACCATCCATCAGATTTTTGTCCGTATCTCCTCATCAATTCTTCA
CCTCCAGCTTCTCATCCATATTTCTTTCTTTCCAATGCAAACAAGTTTTCAACTGTTAAAAGAT
AAACCAAAAACTCACAAGCCAATTAATCTATCAGAAATATTTAACTTTTAACCAAATAAAAACG
TTGAGATATATATAATATAAGCGTTCCTTACCACTCACACACTTCATCTCTCCCCAGAGCTCTA
TTCCCATCAAGGTGTGTGAGATTCTCTGCTAAGACAAACCAAAAACCAGATTGTTTTGCGTTCA
TGGACATGTTCCTCTCTGGAGATTAGAATCGTAGCTATGACTATGTCTGAATTTCACAAGAGGT
AGCTAACTCAGGCCTTTTTGCTCTTTTGACAGAAACACACTTCGGAAGATGGAGATCACTAACG
TTACCGAGTATGATGCAATCGCAAAGCAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATC
TGGTGCAGAAGACCAATGGACTCTTCAAGAGAACAGAAACGCTTTTGCAAGGATCCTGTGAGTT
TTTCTTTTCTTTTCGTAAGACAAGAAATACTGTTTGTTATTGGTTTTTACAATAGGTGTGATGC
ATACCTTGGGCTGTTTAATAGCTTTCGGCCTCGGATTCTGATTGATGTGAGCAAGATTGACATG
ACAACCACCGTCTTGGGGTTCAAGATCTCGATGCCCATCATGGTTGCTCCAACTGCCATGCAAA
AGATGGCTCACCCTGATGGTAAATACTGAGTTATGTAGAGACTAGAGAGTGAAAACTTGTTTTA
GTATCGCTAGAGACAAAGACTAAGGCTTGTTCTAACGACTCTGTTTGAAACTAATGTAGGGGAA
TATGCTACTGCTAGAGCTGCATCTGCAGCTGGAACTATCATGGTATGTTCTTATATCATTACGA
AATATATCATATAGAGCAAGATTTCTTCTAACCTTCTTGGTTTCCGGTGTTTGGAGCTTTTAAA
TCCGTGGCCCATGCATACCCATGTCTCTGGTTTAAGTTATTTTCATCCATGATGTTTCAGACAC
TATCTTCATGGGCTACTTCCAGCGTTGAAGAAGTTGCGTCTACAGGGCCAGGGATCCGATTCTT
CCAGCTCTATGTAAGTTATCTCAAGAGCTTGTTGTACATCCTGAAAACCCCGGTCACACTTGAT
GGTTCTTATGTTATAATCTTTGAGTAGGTATACAAGAACAGGAATGTGGTTGAGCAGCTCGTGA
GAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGTAGACACCCCAAGGCTAGGCCG
CAGAGAGT
						
					

			
		

Sequences
Splice junction sequence	AACAGGAATGTGGTTGAGCAGCTCGTGAGAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTC TCACTGTAGACACCCCAAGGCTAGGCCGCAGAGAGTcttattgaagaagaatgtaagcgaattc atccttcactttgtgctgggctaagtattgcatcgaaaagcccaaaataatttggctcacgaat tcgaaact
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	CTTATTGAAGAAGAATGTAAGCGAATTCATCCTTCACTTTGTGCTGGGCTAAGTATTGCATCGA AAAGCCCAAAATAATTTGGCTCACGAATTCGAAACTCTTGGATTTATGCACTTTTCTGAAAAAA AAAGAAAAACGATTGGTTTACGAATTACTACTATTTTTCTACGAGATTAAGAACGATAATATGT AAGAAAAATCTAAGACACACACCATCCATCAGATTTTTGTCCGTATCTCCTCATCAATTCTTCA CCTCCAGCTTCTCATCCATATTTCTTTCTTTCCAATGCAAACAAGTTTTCAACTGTTAAAAGAT AAACCAAAAACTCACAAGCCAATTAATCTATCAGAAATATTTAACTTTTAACCAAATAAAAACG TTGAGATATATATAATATAAGCGTTCCTTACCACTCACACACTTCATCTCTCCCCAGAGCTCTA TTCCCATCAAGGTGTGTGAGATTCTCTGCTAAGACAAACCAAAAACCAGATTGTTTTGCGTTCA TGGACATGTTCCTCTCTGGAGATTAGAATCGTAGCTATGACTATGTCTGAATTTCACAAGAGGT AGCTAACTCAGGCCTTTTTGCTCTTTTGACAGAAACACACTTCGGAAGATGGAGATCACTAACG TTACCGAGTATGATGCAATCGCAAAGCAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATC TGGTGCAGAAGACCAATGGACTCTTCAAGAGAACAGAAACGCTTTTGCAAGGATCCTGTGAGTT TTTCTTTTCTTTTCGTAAGACAAGAAATACTGTTTGTTATTGGTTTTTACAATAGGTGTGATGC ATACCTTGGGCTGTTTAATAGCTTTCGGCCTCGGATTCTGATTGATGTGAGCAAGATTGACATG ACAACCACCGTCTTGGGGTTCAAGATCTCGATGCCCATCATGGTTGCTCCAACTGCCATGCAAA AGATGGCTCACCCTGATGGTAAATACTGAGTTATGTAGAGACTAGAGAGTGAAAACTTGTTTTA GTATCGCTAGAGACAAAGACTAAGGCTTGTTCTAACGACTCTGTTTGAAACTAATGTAGGGGAA TATGCTACTGCTAGAGCTGCATCTGCAGCTGGAACTATCATGGTATGTTCTTATATCATTACGA AATATATCATATAGAGCAAGATTTCTTCTAACCTTCTTGGTTTCCGGTGTTTGGAGCTTTTAAA TCCGTGGCCCATGCATACCCATGTCTCTGGTTTAAGTTATTTTCATCCATGATGTTTCAGACAC TATCTTCATGGGCTACTTCCAGCGTTGAAGAAGTTGCGTCTACAGGGCCAGGGATCCGATTCTT CCAGCTCTATGTAAGTTATCTCAAGAGCTTGTTGTACATCCTGAAAACCCCGGTCACACTTGAT GGTTCTTATGTTATAATCTTTGAGTAGGTATACAAGAACAGGAATGTGGTTGAGCAGCTCGTGA GAAGAGCTGAGAGGGCTGGGTTCAAAGCCATTGCTCTCACTGTAGACACCCCAAGGCTAGGCCG CAGAGAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.161536329

Conservation Information
Conserved circRNAs	NA
PMCS	0.161536329

			
						 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 3_circ_igg.28

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