Plant Circular RNA Database

Detail information of AT1G73960_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G73960_circ_g.1
					
						ID in PlantcircBase
						ath_circ_010067
					
						Alias
						1:27805172-27808031
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 27805172-27808031  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G73960						
					
						Parent gene annotation
						
							Transcription initiation factor TFIID subunit 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G73960_circ_g.2 AT1G73960_circ_g.3 AT1G73960_circ_g.4 AT1G73960_circ_g.5 AT1G73960_circ_g.6 						
					
						Support reads
						1/1
					
						Tissues
						root;flower
					
						Exon boundary  
						
							No-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  
						
							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
						AT1G73960.2:6
AT1G73960.3:7
AT1G73960.1:7

General Information
CircRNA Name	AT1G73960_circ_g.1
ID in PlantcircBase	ath_circ_010067
Alias	1:27805172-27808031
Organism	Arabidpsis thaliana
Position	chr1: 27805172-27808031 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G73960
Parent gene annotation	Transcription initiation factor TFIID subunit 2
Parent gene strand	-
Alternative splicing	AT1G73960_circ_g.2 AT1G73960_circ_g.3 AT1G73960_circ_g.4 AT1G73960_circ_g.5 AT1G73960_circ_g.6
Support reads	1/1
Tissues	root;flower
Exon boundary	No-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	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	AT1G73960.2:6 AT1G73960.3:7 AT1G73960.1:7

			
						 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  
						
							TAGAGATGTATACCTTCAGAAGCTGTAAGATAAATTCAACAGCTTCTCTAGGGCTTTTCCCCTC
AGCACCCCTAACTATTGCAATGGCATGTGGAATGGCcttatgagttgttgaacgctttgctttt
cagtttgattcggaatttgggaagcggtctagcttctgctgttgatggttcagtctttggttca
accttaat

									
								

					

						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
						
							CTTATGAGTTGTTGAACGCTTTGCTTTTCAGTTTGATTCGGAATTTGGGAAGCGGTCTAGCTTC
TGCTGTTGATGGTTCAGTCTTTGGTTCAACCTTAATCAACATGGCACCATCACTTGGTTCTTCT
TCTTTAACCTCCGCAACACTCTCTATCTTCTTTTTAGCTGGATCCGTAGTGCTGCTCACGAGCT
TCGCCATTTCCTTCTCCTTTCGTTTCTTCTCTTTCTTTAACCGTTTCTTCTCTAGATAAACGGG
ATCTTCTCTTTTCCTCTTCTTCTCTTTCTTTTCCTTGTCTTTCTTCTTTTCCTTTTCTTTACCA
ATCGAAAGTGTTTGGAGGCTCGCGTATTTCTGCTGCGCCTCGTTTTCCATACTGTGGTCTAGTG
GTAAGAAGCTAGGTGGTACAGTTCGGTTGTTATTATCTGCTTTCTGGCTTGTCGAAGGTTTCCC
AGACTCAGCAGTGCATTGCAACTCTTTCCCAAAAATATCGCCTTCGCTTGCAAATTTTACACTG
CCGATGCTTGCAGTCATGCGAGAACCAACATCGTGACACGAATTTACTTCCTCCACGTGATTCT
GATTGCTTATGCTCACAGCGTCAGTTGAGATTCTCTGTGGGGCGTCCACTGAAGCTGAACTAGT
TTGACCTCGGTCTATATCATGGCGTACCACAATCCCTTGAGATCTTTCTATAGTTCGTGCTGAT
CCTTCCGCTCTGCTGGTTGCCCCAGATGGTCTGACCTTGATCCGTATAACAGACTTCTTCACCT
CATGACTAACAGACACAGAAACCACATCAGGTTCTTTTTGAGGTTCCTTTGTTGGAGGGTTTGC
TTCCCTATGAGCTAATTCTTCTGTTGGACCTTCAACATCTGATGGAATCTCATGAACGATGGGA
TTTTCATGTGAAGGTTGGTTTTGACTTTCCATGCGAGGTTCAAGATGCTGTGTCTCATCATACG
CTGCAACAGGTTCTGGCAACATCAGTTCAGGAACAATAGGCATGAACATTTCCTGTGGTATTAT
TGGAACACCATAAGGAGCAACATCCAGCGATTGTCCTTTGGCATCTCCAAGTGCCGAAAGTGAA
GGCTCCCCTGCCTCTGCTCCGGGAACCAAAAATACATTTTTCGGTTCAATGCAGGCCTCCACAT
CAACAAGCTGCAAAGGTTTTTCTTTGGGAACTCCGAACAACGTTGGGGGTCTGAAAATGAGACA
ACAATAAGTATATTCTGTTCAGAATGTGGATAATTATGGTGATAAGCAGAAGAAAACAGAGAAA
AATAACCCTCTAGGCTCAAATAGAACAACTGGATTCCAAACAAAATCCACTGAAGGAAGTAAAC
TACAGACCTTCCAGCGAGGATTTGAAAAATGCAGAACAAGTAGTAGCGAAGAAGTTCATTGTTA
AATACTACATGGCTCTTGAATAGATGCAGCAAATCCAGAAGAGTAACAGTGTCGACACAATCGT
CTGAGTCACATCCAACTGCTATTTGACATAACCGCATTGTGTGTACACACAATTTTACCTGCCC
TGTAATCAAGGGCCAAAGATATAAAAGCAATAAATGAACTCTATTAGAAATAGAAAGCTGCTAT
GTTCCAGCATGAGAATATAACCAACCTCTCAAAGATGATTCTTCTACCAAATATTTCATAAACA
ACAAAAGTGCGGAACTTATGCCTTTGGATTGGTACTCGATGTCAAGAAGTGCCCTACTTCCTTC
TATACGAATTTGCAATATTGTATCCGAATTCCGGAAAGGTTCAATAAGTTTACAGATGTGATCC
TGAAGTCAGTAAATTGCAAGCTTTTAATCACCGCTGGTATCTATCTCATAAGGAGCAATTGGAA
GAAAAAAGCGAAAGGAAAGAACTTACGAAACTGATGGAATCAGAAAGCTTGAGAGCAGTCTGTG
CCAATGTTCGGATGCAGCTAATTGTCAAGATGCCATTGTAGCTTGGCATCAACCTAGTACATTT
ATCTCCAACAAGCTCTCAGTAATAAGTTCTGTTAAAACCTATCAAATCATTAACATCAAACATG
AGGGTACCTGTCAAACTGCAAGAGTCTGTCAATGCGCTTCAGAAGAGGGGCCAAAAACGTTAGA
CTCTGCCAGGGAAACAAAGAGGCAAGAAGTATTGAGCAATTAACCATTAACCATGTAGCAAAGC
TGGTATATTGAAGTTCTAAAATCCACATCTTTGCATATGAACTGAATAATAGGAATCTTTATTT
TTTGTCATAAAAGTATGAGACCAAATCGTTTTTTTTTCCATAAAAGTATGAGACCTCCATAAAG
CTAAATAAACCAATGAAGCCTCAAAATTTTGATAGCTATATAATACATGAGCTAAGTACCAAAT
CTTGTCTTTTCTATGTACCAAATTCAAGGGTTTTTTACTCCTAATAGCGTCAGTAGGAAAAGAC
AAAAATAAATATTACACTACAACAGATAAATCATAGAGTGTCTTTTACAAGATCACAGACCTGC
TGACAGAATTCGAGATCACCAACTGACTGAACAAGCACAGCAAGCCAGAATACATCAGAATACG
AATTCCCACTGTTGTCATTGTACTATAAAATGGAATAGGAAAAAAAGGGCGAGATCAGTTAAGA
TGATAATATGGACTGAAAACAAGCGAAACACCTAATCTTTCATAGATGAAAGAAATCACTGCAG
CGAATAAAGACTAACAGCTTTTATAAAAAGGCTATATCAGTAGGCAACAAAGGTTTCACAAAAT
TTACCCAATAGAGATGTATACCTTCAGAAGCTGTAAGATAAATTCAACAGCTTCTCTAGGGCTT
TTCCCCTCAGCACCCCTAACTATTGCAATGGCATGTGGAATGGC
						
					

			
		

Sequences
Splice junction sequence	TAGAGATGTATACCTTCAGAAGCTGTAAGATAAATTCAACAGCTTCTCTAGGGCTTTTCCCCTC AGCACCCCTAACTATTGCAATGGCATGTGGAATGGCcttatgagttgttgaacgctttgctttt cagtttgattcggaatttgggaagcggtctagcttctgctgttgatggttcagtctttggttca accttaat
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	CTTATGAGTTGTTGAACGCTTTGCTTTTCAGTTTGATTCGGAATTTGGGAAGCGGTCTAGCTTC TGCTGTTGATGGTTCAGTCTTTGGTTCAACCTTAATCAACATGGCACCATCACTTGGTTCTTCT TCTTTAACCTCCGCAACACTCTCTATCTTCTTTTTAGCTGGATCCGTAGTGCTGCTCACGAGCT TCGCCATTTCCTTCTCCTTTCGTTTCTTCTCTTTCTTTAACCGTTTCTTCTCTAGATAAACGGG ATCTTCTCTTTTCCTCTTCTTCTCTTTCTTTTCCTTGTCTTTCTTCTTTTCCTTTTCTTTACCA ATCGAAAGTGTTTGGAGGCTCGCGTATTTCTGCTGCGCCTCGTTTTCCATACTGTGGTCTAGTG GTAAGAAGCTAGGTGGTACAGTTCGGTTGTTATTATCTGCTTTCTGGCTTGTCGAAGGTTTCCC AGACTCAGCAGTGCATTGCAACTCTTTCCCAAAAATATCGCCTTCGCTTGCAAATTTTACACTG CCGATGCTTGCAGTCATGCGAGAACCAACATCGTGACACGAATTTACTTCCTCCACGTGATTCT GATTGCTTATGCTCACAGCGTCAGTTGAGATTCTCTGTGGGGCGTCCACTGAAGCTGAACTAGT TTGACCTCGGTCTATATCATGGCGTACCACAATCCCTTGAGATCTTTCTATAGTTCGTGCTGAT CCTTCCGCTCTGCTGGTTGCCCCAGATGGTCTGACCTTGATCCGTATAACAGACTTCTTCACCT CATGACTAACAGACACAGAAACCACATCAGGTTCTTTTTGAGGTTCCTTTGTTGGAGGGTTTGC TTCCCTATGAGCTAATTCTTCTGTTGGACCTTCAACATCTGATGGAATCTCATGAACGATGGGA TTTTCATGTGAAGGTTGGTTTTGACTTTCCATGCGAGGTTCAAGATGCTGTGTCTCATCATACG CTGCAACAGGTTCTGGCAACATCAGTTCAGGAACAATAGGCATGAACATTTCCTGTGGTATTAT TGGAACACCATAAGGAGCAACATCCAGCGATTGTCCTTTGGCATCTCCAAGTGCCGAAAGTGAA GGCTCCCCTGCCTCTGCTCCGGGAACCAAAAATACATTTTTCGGTTCAATGCAGGCCTCCACAT CAACAAGCTGCAAAGGTTTTTCTTTGGGAACTCCGAACAACGTTGGGGGTCTGAAAATGAGACA ACAATAAGTATATTCTGTTCAGAATGTGGATAATTATGGTGATAAGCAGAAGAAAACAGAGAAA AATAACCCTCTAGGCTCAAATAGAACAACTGGATTCCAAACAAAATCCACTGAAGGAAGTAAAC TACAGACCTTCCAGCGAGGATTTGAAAAATGCAGAACAAGTAGTAGCGAAGAAGTTCATTGTTA AATACTACATGGCTCTTGAATAGATGCAGCAAATCCAGAAGAGTAACAGTGTCGACACAATCGT CTGAGTCACATCCAACTGCTATTTGACATAACCGCATTGTGTGTACACACAATTTTACCTGCCC TGTAATCAAGGGCCAAAGATATAAAAGCAATAAATGAACTCTATTAGAAATAGAAAGCTGCTAT GTTCCAGCATGAGAATATAACCAACCTCTCAAAGATGATTCTTCTACCAAATATTTCATAAACA ACAAAAGTGCGGAACTTATGCCTTTGGATTGGTACTCGATGTCAAGAAGTGCCCTACTTCCTTC TATACGAATTTGCAATATTGTATCCGAATTCCGGAAAGGTTCAATAAGTTTACAGATGTGATCC TGAAGTCAGTAAATTGCAAGCTTTTAATCACCGCTGGTATCTATCTCATAAGGAGCAATTGGAA GAAAAAAGCGAAAGGAAAGAACTTACGAAACTGATGGAATCAGAAAGCTTGAGAGCAGTCTGTG CCAATGTTCGGATGCAGCTAATTGTCAAGATGCCATTGTAGCTTGGCATCAACCTAGTACATTT ATCTCCAACAAGCTCTCAGTAATAAGTTCTGTTAAAACCTATCAAATCATTAACATCAAACATG AGGGTACCTGTCAAACTGCAAGAGTCTGTCAATGCGCTTCAGAAGAGGGGCCAAAAACGTTAGA CTCTGCCAGGGAAACAAAGAGGCAAGAAGTATTGAGCAATTAACCATTAACCATGTAGCAAAGC TGGTATATTGAAGTTCTAAAATCCACATCTTTGCATATGAACTGAATAATAGGAATCTTTATTT TTTGTCATAAAAGTATGAGACCAAATCGTTTTTTTTTCCATAAAAGTATGAGACCTCCATAAAG CTAAATAAACCAATGAAGCCTCAAAATTTTGATAGCTATATAATACATGAGCTAAGTACCAAAT CTTGTCTTTTCTATGTACCAAATTCAAGGGTTTTTTACTCCTAATAGCGTCAGTAGGAAAAGAC AAAAATAAATATTACACTACAACAGATAAATCATAGAGTGTCTTTTACAAGATCACAGACCTGC TGACAGAATTCGAGATCACCAACTGACTGAACAAGCACAGCAAGCCAGAATACATCAGAATACG AATTCCCACTGTTGTCATTGTACTATAAAATGGAATAGGAAAAAAAGGGCGAGATCAGTTAAGA TGATAATATGGACTGAAAACAAGCGAAACACCTAATCTTTCATAGATGAAAGAAATCACTGCAG CGAATAAAGACTAACAGCTTTTATAAAAAGGCTATATCAGTAGGCAACAAAGGTTTCACAAAAT TTACCCAATAGAGATGTATACCTTCAGAAGCTGTAAGATAAATTCAACAGCTTCTCTAGGGCTT TTCCCCTCAGCACCCCTAACTATTGCAATGGCATGTGGAATGGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.122889568

Conservation Information
Conserved circRNAs	NA
PMCS	0.122889568

			
						 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 AT1G73960_circ_g.1

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