Plant Circular RNA Database

Detail information of AT1G07910_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G07910_circ_g.4
					
						ID in PlantcircBase
						ath_circ_001227
					
						Alias
						1:2450208-2452104
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2450208-2452104  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G07910						
					
						Parent gene annotation
						
							RNAligase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G07910_circ_g.3 AT1G07910_circ_g.5 AT1G07910_circ_g.6 AT1G07910_circ_g.7 AT1G07910_circ_g.8 AT1G07910_circ_g.9 AT1G07910_circ_g.10 AT1G07910_circ_g.11 AT1G07910_circ_g.12 AT1G07910_circ_g.13 AT1G07910_circ_g.14 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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
						AT1G07910.2:7
AT1G07910.1:7

General Information
CircRNA Name	AT1G07910_circ_g.4
ID in PlantcircBase	ath_circ_001227
Alias	1:2450208-2452104
Organism	Arabidpsis thaliana
Position	chr1: 2450208-2452104 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G07910
Parent gene annotation	RNAligase
Parent gene strand	+
Alternative splicing	AT1G07910_circ_g.3 AT1G07910_circ_g.5 AT1G07910_circ_g.6 AT1G07910_circ_g.7 AT1G07910_circ_g.8 AT1G07910_circ_g.9 AT1G07910_circ_g.10 AT1G07910_circ_g.11 AT1G07910_circ_g.12 AT1G07910_circ_g.13 AT1G07910_circ_g.14
Support reads	2
Tissues	seedling
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	AT1G07910.2:7 AT1G07910.1:7

			
						 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  
						
							AAGTCTCATTTCAATCTTATTCTCGTATTTCCCTATTAGATTGAAGATATGTGTCGGAGAACTA
GGGCTTCTGCAGTTCCAATCGTTGCTGATTCTGAAGgtttctttgttgatattaatttgttcaa
gtcaaacaaagggagggatctgatggctctgaaaagcattgataatgccagtgaaaatgatggt
cgaggaga

									
								

					

						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
						
							GTTTCTTTGTTGATATTAATTTGTTCAAGTCAAACAAAGGGAGGGATCTGATGGCTCTGAAAAG
CATTGATAATGCCAGTGAAAATGATGGTCGAGGAGAAAAGGATGGTTTGGCTGATGATGATGCT
AACTTAATGATTAAAATGAAGTTTCTCACATACAAGGTAATTTTAGGATGGAAGGTCTTCTGGC
TAGAGGGATTTGTAATTTGTTGCAATTTCCTGGCTCTTTCGTTGCATTATCATCCTGATGTTGG
ACATGTCTTCATTTTTTTTACAGTTGAGAACCTTTTTGATCCGTAATGGCCTATCAATTCTATT
TAAAGACGGGGCAGCAGCTTACAAAACTTACTACCTTAGGTGAGCTGCTTTCTCCCTATGAATA
TATACATATAGAGTGATGTGTCAAATGTTATAGTGATGTTTTGCATTGCATTGTAAAACAAAAC
GTGGAGACTAGTTGTTGCATACTCATTATGTTTTGATTATGTAGGAGCTGACGTGGTCAAGCTT
TAATTTGATTTTTTTCTAATATCATTGTTGTTTCTGCATCCAGGCAAATGAAAATCTGGGGTAC
GTCAGATGGAAAGCAGAAAGAACTTTGCAAGATGCTTGATGAATGGTACCAAAATCACACTACT
CTACACATGTAGACTAAGCTTATACAATTTTGTGGAAACTTATTTCCTGAGCAAATGTGTAACC
TACTGCCTAGATAATTTTTCATCTTTTTGAATCTGGATTAGCATCTCATCTTCTCTTCTCTTCA
CTACGTGCAGGGCTGCTTACATAAGAAGAAAGTGTGGGAATGATCAGCTATCTTCATCAACATA
CTTAAGTGAAGCTGAGCCATTCCTGGAGCAGTACGCGAAACGGAGCCCAAAGAACCATATTTTG
ATAGGGTCTGCTGGGAACCTAGTTAGAACTGAGGACTTCTTGGCCATTGTTGACGGTGATCTAG
ATGAAGAAGGCGATCTTGTGAAGAAACAAGGAGTGACACCAGCTACTCCTGAGCCAGCTGTGAA
GGAAGCTGTCCAAAAGGATGAGGGGTTAATTGTATTCTTTCCAGGTATTCATTGTTATATATTA
TTTCATGTATTCTGGTTGTTGGTTTTAGTTCATTTTTGTGGCAGTGTCTTATATTGAACTTATG
GATGGTAGTGGTTATCAGCTTGTAATTGTTTTAGTCATTCAGATAATAAAACATTAGTAAAAAA
TCAAGTTTTTTACTTCTGACCAGAAGTGAGAGCAACACATTGTTTTAGAGTGACTGGTGGTATA
TTTTTCTGTATATGTCGTTTGCTTTGACATCTCCTTTAATCTCTTTTCTTCTGATTTCTACAAT
ATTAATGTTTTCTCAGGAATTCCTGGATCTGCTAAATCTGCACTTTGCAAGGAGTTATTGAACG
CCCCAGGAGGCTTTGGAGATGATAGGCCAGTGCATACTCTGATGGGTGATCTTGTCAAAGGTAT
TTTAGAATGTAGGTTTTTTTTGGGTCAAAACTGCTCTGGTCTCTCAATTTGCTATGCCATCTCA
TGCAATATTCTACATACGGGACAGGAAAATATTGGCCAAAGGTTGCTGATGAACGTCGTAAAAA
ACCACAATCGATTATGTTGGCTGACAAAAATGCCCCAAATGAAGATGTCTGGAGACAGGTAATT
AATCCTACGTTGAGAATCTGTTACAACCTTACATTAAGTAGAAATGAGTATTAGGCTTATAAGA
TTCTCTGCCTCTCCTCGTGCATTTAGAATAGCTCTACGCATGGGTCCTTTAAGAGTGGCTTTGG
CTTACAAGTCTCATTTCAATCTTATTCTCGTATTTCCCTATTAGATTGAAGATATGTGTCGGAG
AACTAGGGCTTCTGCAGTTCCAATCGTTGCTGATTCTGAAG
						
					

			
		

Sequences
Splice junction sequence	AAGTCTCATTTCAATCTTATTCTCGTATTTCCCTATTAGATTGAAGATATGTGTCGGAGAACTA GGGCTTCTGCAGTTCCAATCGTTGCTGATTCTGAAGgtttctttgttgatattaatttgttcaa gtcaaacaaagggagggatctgatggctctgaaaagcattgataatgccagtgaaaatgatggt cgaggaga
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	GTTTCTTTGTTGATATTAATTTGTTCAAGTCAAACAAAGGGAGGGATCTGATGGCTCTGAAAAG CATTGATAATGCCAGTGAAAATGATGGTCGAGGAGAAAAGGATGGTTTGGCTGATGATGATGCT AACTTAATGATTAAAATGAAGTTTCTCACATACAAGGTAATTTTAGGATGGAAGGTCTTCTGGC TAGAGGGATTTGTAATTTGTTGCAATTTCCTGGCTCTTTCGTTGCATTATCATCCTGATGTTGG ACATGTCTTCATTTTTTTTACAGTTGAGAACCTTTTTGATCCGTAATGGCCTATCAATTCTATT TAAAGACGGGGCAGCAGCTTACAAAACTTACTACCTTAGGTGAGCTGCTTTCTCCCTATGAATA TATACATATAGAGTGATGTGTCAAATGTTATAGTGATGTTTTGCATTGCATTGTAAAACAAAAC GTGGAGACTAGTTGTTGCATACTCATTATGTTTTGATTATGTAGGAGCTGACGTGGTCAAGCTT TAATTTGATTTTTTTCTAATATCATTGTTGTTTCTGCATCCAGGCAAATGAAAATCTGGGGTAC GTCAGATGGAAAGCAGAAAGAACTTTGCAAGATGCTTGATGAATGGTACCAAAATCACACTACT CTACACATGTAGACTAAGCTTATACAATTTTGTGGAAACTTATTTCCTGAGCAAATGTGTAACC TACTGCCTAGATAATTTTTCATCTTTTTGAATCTGGATTAGCATCTCATCTTCTCTTCTCTTCA CTACGTGCAGGGCTGCTTACATAAGAAGAAAGTGTGGGAATGATCAGCTATCTTCATCAACATA CTTAAGTGAAGCTGAGCCATTCCTGGAGCAGTACGCGAAACGGAGCCCAAAGAACCATATTTTG ATAGGGTCTGCTGGGAACCTAGTTAGAACTGAGGACTTCTTGGCCATTGTTGACGGTGATCTAG ATGAAGAAGGCGATCTTGTGAAGAAACAAGGAGTGACACCAGCTACTCCTGAGCCAGCTGTGAA GGAAGCTGTCCAAAAGGATGAGGGGTTAATTGTATTCTTTCCAGGTATTCATTGTTATATATTA TTTCATGTATTCTGGTTGTTGGTTTTAGTTCATTTTTGTGGCAGTGTCTTATATTGAACTTATG GATGGTAGTGGTTATCAGCTTGTAATTGTTTTAGTCATTCAGATAATAAAACATTAGTAAAAAA TCAAGTTTTTTACTTCTGACCAGAAGTGAGAGCAACACATTGTTTTAGAGTGACTGGTGGTATA TTTTTCTGTATATGTCGTTTGCTTTGACATCTCCTTTAATCTCTTTTCTTCTGATTTCTACAAT ATTAATGTTTTCTCAGGAATTCCTGGATCTGCTAAATCTGCACTTTGCAAGGAGTTATTGAACG CCCCAGGAGGCTTTGGAGATGATAGGCCAGTGCATACTCTGATGGGTGATCTTGTCAAAGGTAT TTTAGAATGTAGGTTTTTTTTGGGTCAAAACTGCTCTGGTCTCTCAATTTGCTATGCCATCTCA TGCAATATTCTACATACGGGACAGGAAAATATTGGCCAAAGGTTGCTGATGAACGTCGTAAAAA ACCACAATCGATTATGTTGGCTGACAAAAATGCCCCAAATGAAGATGTCTGGAGACAGGTAATT AATCCTACGTTGAGAATCTGTTACAACCTTACATTAAGTAGAAATGAGTATTAGGCTTATAAGA TTCTCTGCCTCTCCTCGTGCATTTAGAATAGCTCTACGCATGGGTCCTTTAAGAGTGGCTTTGG CTTACAAGTCTCATTTCAATCTTATTCTCGTATTTCCCTATTAGATTGAAGATATGTGTCGGAG AACTAGGGCTTCTGCAGTTCCAATCGTTGCTGATTCTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131994606

Conservation Information
Conserved circRNAs	NA
PMCS	0.131994606

			
						 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 AT1G07910_circ_g.4

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