Plant Circular RNA Database

Detail information of AT1G19110_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G19110_circ_g.4
					
						ID in PlantcircBase
						ath_circ_003390
					
						Alias
						1:6602832-6605295
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 6602832-6605295  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G19110						
					
						Parent gene annotation
						
							Inter-alpha-trypsin inhibitor heavy chain-like protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G19110_circ_g.1 AT1G19110_circ_g.2 AT1G19110_circ_g.3 AT1G19110_circ_g.5 						
					
						Support reads
						1/1/1
					
						Tissues
						seedling;root;flower
					
						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
						AT1G19110.1:11

General Information
CircRNA Name	AT1G19110_circ_g.4
ID in PlantcircBase	ath_circ_003390
Alias	1:6602832-6605295
Organism	Arabidpsis thaliana
Position	chr1: 6602832-6605295 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G19110
Parent gene annotation	Inter-alpha-trypsin inhibitor heavy chain-like protein
Parent gene strand	+
Alternative splicing	AT1G19110_circ_g.1 AT1G19110_circ_g.2 AT1G19110_circ_g.3 AT1G19110_circ_g.5
Support reads	1/1/1
Tissues	seedling;root;flower
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	AT1G19110.1:11

			
						 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  
						
							ACTAAGCATCCAAACCGGCGTACTATCCGAGTATACTCGAATGATCCAATTAGAGAACACAGAA
GAATTGAAACCCAGCGAAACTGGCGGAAAGAAAAAGggatcaatactaggtgttgaggttgaga
ttcctagaaaatcgtacacaacgcagttgatcacagcagaagatggaaacgaatttgagaaaac
ggcactac

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 1533
Transcript exons: 6602832-6602984,6603071-6603283,6603376-6603465,6603580-
6603696,6603777-6604046,6604146-6604302,6604389-6604466,
6604559-6604659,6604764-6604934,6605039-6605113,6605188-
6605295
GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG
CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA
CATTTTCACTCTTACTATACCACAGGTTGATGGAGGTACCAATCTCTCTATCAAGATGACTTGG
TCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGATATTCCTTTCAACTTTCCTGAGT
ATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGATTTACTTGAGTGTTAATGCTGG
TACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACTAAAGGAGAAATTGCGGAGTGCA
GGGAAGTTGAGGTTTGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTT
CTTATACGGCCTCCTCAAGTAATATAGTTGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGA
TGTTGATCAGAGGGACATATTTTCTTTCTATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGCA
TTCAAGCGGGAGGTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGG
ATGTAAAAAATGCGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTAT
CACTTTCAGCAATGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTT
GAAAGAGGCATTGAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTC
CCCTAGAGAAGGCTGTGGAAATGCTTTCAAATACTCGTGGCTCTATTCCTATGATCTTCTTCGT
AACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATGTAATGAAGAAACATCTAGCTAGT
GCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGGTGTATTCTGTAATCACTACTTCC
TGCAAATGCTTGCAAATATATCCTGTGGCCAGCACGAATCAGTTTATAATACAGATCACATTGA
GGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATAGCAATTGAG
CCCCTTCAGAGTCTAGATGAAGTTGAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAA
GTCCATTGATGATATATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCT
GCTAGGAGATTTGAGCAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTT
GATAAAGTATTTGCAAAGAATGTTATTGACTTGCTTACTGCTGAGGCATGGTTTTCTGAAGATA
AACAGCTAAAAGAGAAGATTGCTAAACTAAGCATCCAAACCGGCGTACTATCCGAGTATACTCG
AATGATCCAATTAGAGAACACAGAAGAATTGAAACCCAGCGAAACTGGCGGAAAGAAAAAG
						
					

						Genomic sequence
						
							GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG
CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA
CATTTTCACTCTTACTATACCACAGGTGATTTGGAGTTAAATGTTCTTCCTCTTGTGTTTTTCT
TTATTCTTCATTCTGATTATGTATATCGTTTCTGTTCTTGTTTTCAGGTTGATGGAGGTACCAA
TCTCTCTATCAAGATGACTTGGTCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGAT
ATTCCTTTCAACTTTCCTGAGTATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGA
TTTACTTGAGTGTTAATGCTGGTACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACT
AAAGGTTTGATTTTATAGATTTTTCTGAATACACTCCATAATATTTCAATTTTTTTGCTCTATC
ATTTTAACTCTTATTCCTTTCTTTTATTACAGGAGAAATTGCGGAGTGCAGGGAAGTTGAGGTT
TGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTTCTTATACGGTATTG
GCTTTAACTGGTGGTGCTCCAACTTCGCGTATGCACTTGCAAAAAATTTGGATTGAATTTAGTT
GTAAAGAGTGCTTATGCTTTTATTTGTTTTCTAATAAATCGTAGGCCTCCTCAAGTAATATAGT
TGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGATGTTGATCAGAGGGACATATTTTCTTTC
TATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGTTTGATTTTTAACTCTTTCTTTTCTCTAGC
AATAAATTCATTTGCATTTTAATCTTAAGTTTTGTTTTGTCAACTTTAGGCATTCAAGCGGGAG
GTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGGATGTAAAAAATG
CGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTATCACTTTCAGCAA
TGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTTGAAAGAGGCATT
GAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTCCCCTAGAGAAGG
TCTTTCCGCCACTCATTTGTAGCTTAACATTTTGGTGATTATATCCCCTCTGATTGAATCCTGA
CATTAATTCGGCTAACTTTGTTCAATACTTTCAGGCTGTGGAAATGCTTTCAAATACTCGTGGC
TCTATTCCTATGATCTTCTTCGTAACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATG
TAATGAAGAAACATCTAGCTAGTGCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGG
TAAACTTTTCTCCAAGGTTTTGATGTTAAATAACCCGGATCGTTTTATTTACCTTTTCGTTTTT
GGATTCTTTGCAATATTTCAGGTGTATTCTGTAATCACTACTTCCTGCAAATGCTTGCAAATAT
ATCCTGTGGCCAGCACGAATCAGTTTATAATACAGGTGAAACTTTGACTCTGTTTGGTGAATTA
AAGGAAAAAGTTAACATCTGTAATATAGTTTCTTAAACAATGTTCTTCTTCTTTGATGTCCAGA
TCACATTGAGGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATA
GCAATTGAGCCCCTTCAGAGTCTAGATGAAGTTGAGGTGTGCCTCTATGCTTGCTTGACTTTTC
TGGGATTTTTGTTTCCTTCCGATTCTGTGAAGTTGATGCCTAAAACTGAAACTGTTACCTGTGA
CTACAATAATAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAAGTCCATTGATGATAT
ATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAG
CAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAAGTAAGATCT
ACGTCCTGCTCAGTATCATTCCTATGGAGCTTCTTTCGATAAAGACTTCTGGGTTTATTCATAA
TTCATCCTTTTCCCTAAATTTTAATGTTCAGGTATTTGCAAAGAATGTTATTGACTTGCTTACT
GCTGAGGCATGGTTTTCTGAAGATAAACAGCTAAAAGAGAAGGTTTGTCTACAATTCACTTCCC
CCACTGCCTCTTTCAGGATTTGCTTCTTCATTTTGCTTTATCTTCTTCGCAGATTGCTAAACTA
AGCATCCAAACCGGCGTACTATCCGAGTATACTCGAATGATCCAATTAGAGAACACAGAAGAAT
TGAAACCCAGCGAAACTGGCGGAAAGAAAAAG
						
					

			
		

Sequences
Splice junction sequence	ACTAAGCATCCAAACCGGCGTACTATCCGAGTATACTCGAATGATCCAATTAGAGAACACAGAA GAATTGAAACCCAGCGAAACTGGCGGAAAGAAAAAGggatcaatactaggtgttgaggttgaga ttcctagaaaatcgtacacaacgcagttgatcacagcagaagatggaaacgaatttgagaaaac ggcactac
Assembled circRNA sequence	Yes 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	Transcript length: 1533 Transcript exons: 6602832-6602984,6603071-6603283,6603376-6603465,6603580- 6603696,6603777-6604046,6604146-6604302,6604389-6604466, 6604559-6604659,6604764-6604934,6605039-6605113,6605188- 6605295 GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA CATTTTCACTCTTACTATACCACAGGTTGATGGAGGTACCAATCTCTCTATCAAGATGACTTGG TCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGATATTCCTTTCAACTTTCCTGAGT ATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGATTTACTTGAGTGTTAATGCTGG TACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACTAAAGGAGAAATTGCGGAGTGCA GGGAAGTTGAGGTTTGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTT CTTATACGGCCTCCTCAAGTAATATAGTTGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGA TGTTGATCAGAGGGACATATTTTCTTTCTATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGCA TTCAAGCGGGAGGTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGG ATGTAAAAAATGCGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTAT CACTTTCAGCAATGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTT GAAAGAGGCATTGAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTC CCCTAGAGAAGGCTGTGGAAATGCTTTCAAATACTCGTGGCTCTATTCCTATGATCTTCTTCGT AACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATGTAATGAAGAAACATCTAGCTAGT GCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGGTGTATTCTGTAATCACTACTTCC TGCAAATGCTTGCAAATATATCCTGTGGCCAGCACGAATCAGTTTATAATACAGATCACATTGA GGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATAGCAATTGAG CCCCTTCAGAGTCTAGATGAAGTTGAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAA GTCCATTGATGATATATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCT GCTAGGAGATTTGAGCAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTT GATAAAGTATTTGCAAAGAATGTTATTGACTTGCTTACTGCTGAGGCATGGTTTTCTGAAGATA AACAGCTAAAAGAGAAGATTGCTAAACTAAGCATCCAAACCGGCGTACTATCCGAGTATACTCG AATGATCCAATTAGAGAACACAGAAGAATTGAAACCCAGCGAAACTGGCGGAAAGAAAAAG
Genomic sequence	GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA CATTTTCACTCTTACTATACCACAGGTGATTTGGAGTTAAATGTTCTTCCTCTTGTGTTTTTCT TTATTCTTCATTCTGATTATGTATATCGTTTCTGTTCTTGTTTTCAGGTTGATGGAGGTACCAA TCTCTCTATCAAGATGACTTGGTCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGAT ATTCCTTTCAACTTTCCTGAGTATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGA TTTACTTGAGTGTTAATGCTGGTACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACT AAAGGTTTGATTTTATAGATTTTTCTGAATACACTCCATAATATTTCAATTTTTTTGCTCTATC ATTTTAACTCTTATTCCTTTCTTTTATTACAGGAGAAATTGCGGAGTGCAGGGAAGTTGAGGTT TGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTTCTTATACGGTATTG GCTTTAACTGGTGGTGCTCCAACTTCGCGTATGCACTTGCAAAAAATTTGGATTGAATTTAGTT GTAAAGAGTGCTTATGCTTTTATTTGTTTTCTAATAAATCGTAGGCCTCCTCAAGTAATATAGT TGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGATGTTGATCAGAGGGACATATTTTCTTTC TATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGTTTGATTTTTAACTCTTTCTTTTCTCTAGC AATAAATTCATTTGCATTTTAATCTTAAGTTTTGTTTTGTCAACTTTAGGCATTCAAGCGGGAG GTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGGATGTAAAAAATG CGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTATCACTTTCAGCAA TGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTTGAAAGAGGCATT GAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTCCCCTAGAGAAGG TCTTTCCGCCACTCATTTGTAGCTTAACATTTTGGTGATTATATCCCCTCTGATTGAATCCTGA CATTAATTCGGCTAACTTTGTTCAATACTTTCAGGCTGTGGAAATGCTTTCAAATACTCGTGGC TCTATTCCTATGATCTTCTTCGTAACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATG TAATGAAGAAACATCTAGCTAGTGCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGG TAAACTTTTCTCCAAGGTTTTGATGTTAAATAACCCGGATCGTTTTATTTACCTTTTCGTTTTT GGATTCTTTGCAATATTTCAGGTGTATTCTGTAATCACTACTTCCTGCAAATGCTTGCAAATAT ATCCTGTGGCCAGCACGAATCAGTTTATAATACAGGTGAAACTTTGACTCTGTTTGGTGAATTA AAGGAAAAAGTTAACATCTGTAATATAGTTTCTTAAACAATGTTCTTCTTCTTTGATGTCCAGA TCACATTGAGGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATA GCAATTGAGCCCCTTCAGAGTCTAGATGAAGTTGAGGTGTGCCTCTATGCTTGCTTGACTTTTC TGGGATTTTTGTTTCCTTCCGATTCTGTGAAGTTGATGCCTAAAACTGAAACTGTTACCTGTGA CTACAATAATAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAAGTCCATTGATGATAT ATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAG CAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAAGTAAGATCT ACGTCCTGCTCAGTATCATTCCTATGGAGCTTCTTTCGATAAAGACTTCTGGGTTTATTCATAA TTCATCCTTTTCCCTAAATTTTAATGTTCAGGTATTTGCAAAGAATGTTATTGACTTGCTTACT GCTGAGGCATGGTTTTCTGAAGATAAACAGCTAAAAGAGAAGGTTTGTCTACAATTCACTTCCC CCACTGCCTCTTTCAGGATTTGCTTCTTCATTTTGCTTTATCTTCTTCGCAGATTGCTAAACTA AGCATCCAAACCGGCGTACTATCCGAGTATACTCGAATGATCCAATTAGAGAACACAGAAGAAT TGAAACCCAGCGAAACTGGCGGAAAGAAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229759146

Conservation Information
Conserved circRNAs	NA
PMCS	0.229759146

			
						 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 AT1G19110_circ_g.4

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