Plant Circular RNA Database

Detail information of TRIAE_CS42_U_TGACv1_641411_AA2094290_circ_g.1

			
						 General Information
					
						CircRNA Name
						TRIAE_CS42_U_TGACv1_641411_AA2094290_circ_g.1
					
						ID in PlantcircBase
						tae_circ_000060
					
						Alias
						IWGSC_CSS_4DS_scaff_2307013:2345|3583
					
						Organism
						
							Triticum aestivum						
					
						Position
						
							chrTGACv1_scaffold_641411_U: 8774-10012  JBrowse»						
					
						Reference genome
						
							TGACv1.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							TRIAE_CS42_U_TGACv1_641411_AA2094290						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaves of seedlings
					
						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
						TRIAE_CS42_U_TGACv1_641411_AA2094290.2:3
TRIAE_CS42_U_TGACv1_641411_AA2094290.1:3

General Information
CircRNA Name	TRIAE_CS42_U_TGACv1_641411_AA2094290_circ_g.1
ID in PlantcircBase	tae_circ_000060
Alias	IWGSC_CSS_4DS_scaff_2307013:2345\|3583
Organism	Triticum aestivum
Position	chrTGACv1_scaffold_641411_U: 8774-10012 JBrowse»
Reference genome	TGACv1.38
Type	e-circRNA
Identification method	CIRI
Parent gene	TRIAE_CS42_U_TGACv1_641411_AA2094290
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaves of seedlings
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	TRIAE_CS42_U_TGACv1_641411_AA2094290.2:3 TRIAE_CS42_U_TGACv1_641411_AA2094290.1:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CCCATTTAAAAACTTGCGTGA
 R: GTGCCTTAACAGCCCTCTTG
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	Yes 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	F: CCCATTTAAAAACTTGCGTGA R: GTGCCTTAACAGCCCTCTTG 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  
						
							GTTTAGTGTCAATAGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCAC
GGAGGATCTGACATGGTGATTGCAAAGCAAGCAATTatataacagatgtttgtttggatgagaa
tgctgtgtcaagtgatccacttctggcttttcttttggacgaggtggtcatcaaggactggtgc
aagagggc

									
								

					

						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: 665
Transcript exons: 8774-8908,9051-9172,9605-10012
ATATAACAGATGTTTGTTTGGATGAGAATGCTGTGTCAAGTGATCCACTTCTGGCTTTTCTTTT
GGACGAGGTGGTCATCAAGGACTGGTGCAAGAGGGCTGTTAAGGCACTCATATCAGAGATATGC
ACGATTTATAGATCTGGATTAGAGACGATGAAGTCTAAGTTATCCCAGATGCAAAAGTTTGCAG
TGCAGCTGTCAGGGATATCCACTGTTGTTGAAGCTATGATCGCATCTTTCAGAGAGGCAGCTCA
TCATTTGGAAGCCATGATATGGTGCACCAGGCATGAATTTCTTGAGAAAATTTGCTCACGCCAT
GCTAGTTTTGCTACTTGGAGTGCTGATGTGATTGAAAGGAAAAAGTCTGCAGAGGAACGACAAT
GGCCTGAATTCTCTGGTAAATCATCAGGTCACAACGAAGTCAACCAGGGTATACTTTTCATCGA
GCAGGCACTACAAAACCTTGGGGGTCAACAAAGTTATAGGGATAATGAGGAAGAAGCAGAAATC
ACATGTCTGCAGAATGAACAATCAGCATTTGAGTTCTCTTATACAATTGATCAGTTTAGTGTCA
ATAGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCACGGAGGATCTGA
CATGGTGATTGCAAAGCAAGCAATT
						
					

						Genomic sequence
						
							ATATAACAGATGTTTGTTTGGATGAGAATGCTGTGTCAAGTGATCCACTTCTGGCTTTTCTTTT
GGACGAGGTGGTCATCAAGGACTGGTGCAAGAGGGCTGTTAAGGCACTCATATCAGAGATATGC
ACGATTTGTATCCACCAATGTTTAACCAGTTCCAGTTACAGAATTTATATATTTTTGACTAGCC
TTTCATCTCTTCGTGCAAGCACAGCCATGCATGTTGAGGGAGAGGCAAGATTATATTGTTAAAT
AACACCTTAACCACATCTTAGATAGATCTGGATTAGAGACGATGAAGTCTAAGTTATCCCAGAT
GCAAAAGTTTGCAGTGCAGCTGTCAGGGATATCCACTGTTGTTGAAGCTATGATCGCATCTTTC
AGAGAGGCAGCTCATGTAAATGACCTGCATCATCTCATCGAGAACACAATGAAGGCAAAGCAGG
TCTTATTTCTTAAATCCATGGCTATTAGGGCTTTTATGTCACTGTCAACAATCTAAATATTAAG
TTCTGCTATGCATGGTAGTTGGGTTTTGCTATGAGTTGATTATGCTGGGAGGTGTAGATTCATT
CAACAGCTTACTTTCTATTCATGGGTTGCGTGAATCGATTTGGATACATAGCTCAAGTAAGACT
GGAATATGGACAACTACAACTACATTTATCCATCTTTATCTTCTCTTTCCCTTTTTGTTTCTCT
TATCTTTTTCATGTATGTTGATCATCAATTGTTCTTCACTGAAATGCTTTAGAAGAAAAGTAAT
CAGATGTTTCTTACACCATCATTATTTCTTCCTGAAGTGTTAATTTTGGAGTTTTTCCTACAGC
ATTTGGAAGCCATGATATGGTGCACCAGGCATGAATTTCTTGAGAAAATTTGCTCACGCCATGC
TAGTTTTGCTACTTGGAGTGCTGATGTGATTGAAAGGAAAAAGTCTGCAGAGGAACGACAATGG
CCTGAATTCTCTGGTAAATCATCAGGTCACAACGAAGTCAACCAGGGTATACTTTTCATCGAGC
AGGCACTACAAAACCTTGGGGGTCAACAAAGTTATAGGGATAATGAGGAAGAAGCAGAAATCAC
ATGTCTGCAGAATGAACAATCAGCATTTGAGTTCTCTTATACAATTGATCAGTTTAGTGTCAAT
AGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCACGGAGGATCTGACA
TGGTGATTGCAAAGCAAGCAATT
						
					

			
		

Sequences
Splice junction sequence	GTTTAGTGTCAATAGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCAC GGAGGATCTGACATGGTGATTGCAAAGCAAGCAATTatataacagatgtttgtttggatgagaa tgctgtgtcaagtgatccacttctggcttttcttttggacgaggtggtcatcaaggactggtgc aagagggc
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: 665 Transcript exons: 8774-8908,9051-9172,9605-10012 ATATAACAGATGTTTGTTTGGATGAGAATGCTGTGTCAAGTGATCCACTTCTGGCTTTTCTTTT GGACGAGGTGGTCATCAAGGACTGGTGCAAGAGGGCTGTTAAGGCACTCATATCAGAGATATGC ACGATTTATAGATCTGGATTAGAGACGATGAAGTCTAAGTTATCCCAGATGCAAAAGTTTGCAG TGCAGCTGTCAGGGATATCCACTGTTGTTGAAGCTATGATCGCATCTTTCAGAGAGGCAGCTCA TCATTTGGAAGCCATGATATGGTGCACCAGGCATGAATTTCTTGAGAAAATTTGCTCACGCCAT GCTAGTTTTGCTACTTGGAGTGCTGATGTGATTGAAAGGAAAAAGTCTGCAGAGGAACGACAAT GGCCTGAATTCTCTGGTAAATCATCAGGTCACAACGAAGTCAACCAGGGTATACTTTTCATCGA GCAGGCACTACAAAACCTTGGGGGTCAACAAAGTTATAGGGATAATGAGGAAGAAGCAGAAATC ACATGTCTGCAGAATGAACAATCAGCATTTGAGTTCTCTTATACAATTGATCAGTTTAGTGTCA ATAGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCACGGAGGATCTGA CATGGTGATTGCAAAGCAAGCAATT
Genomic sequence	ATATAACAGATGTTTGTTTGGATGAGAATGCTGTGTCAAGTGATCCACTTCTGGCTTTTCTTTT GGACGAGGTGGTCATCAAGGACTGGTGCAAGAGGGCTGTTAAGGCACTCATATCAGAGATATGC ACGATTTGTATCCACCAATGTTTAACCAGTTCCAGTTACAGAATTTATATATTTTTGACTAGCC TTTCATCTCTTCGTGCAAGCACAGCCATGCATGTTGAGGGAGAGGCAAGATTATATTGTTAAAT AACACCTTAACCACATCTTAGATAGATCTGGATTAGAGACGATGAAGTCTAAGTTATCCCAGAT GCAAAAGTTTGCAGTGCAGCTGTCAGGGATATCCACTGTTGTTGAAGCTATGATCGCATCTTTC AGAGAGGCAGCTCATGTAAATGACCTGCATCATCTCATCGAGAACACAATGAAGGCAAAGCAGG TCTTATTTCTTAAATCCATGGCTATTAGGGCTTTTATGTCACTGTCAACAATCTAAATATTAAG TTCTGCTATGCATGGTAGTTGGGTTTTGCTATGAGTTGATTATGCTGGGAGGTGTAGATTCATT CAACAGCTTACTTTCTATTCATGGGTTGCGTGAATCGATTTGGATACATAGCTCAAGTAAGACT GGAATATGGACAACTACAACTACATTTATCCATCTTTATCTTCTCTTTCCCTTTTTGTTTCTCT TATCTTTTTCATGTATGTTGATCATCAATTGTTCTTCACTGAAATGCTTTAGAAGAAAAGTAAT CAGATGTTTCTTACACCATCATTATTTCTTCCTGAAGTGTTAATTTTGGAGTTTTTCCTACAGC ATTTGGAAGCCATGATATGGTGCACCAGGCATGAATTTCTTGAGAAAATTTGCTCACGCCATGC TAGTTTTGCTACTTGGAGTGCTGATGTGATTGAAAGGAAAAAGTCTGCAGAGGAACGACAATGG CCTGAATTCTCTGGTAAATCATCAGGTCACAACGAAGTCAACCAGGGTATACTTTTCATCGAGC AGGCACTACAAAACCTTGGGGGTCAACAAAGTTATAGGGATAATGAGGAAGAAGCAGAAATCAC ATGTCTGCAGAATGAACAATCAGCATTTGAGTTCTCTTATACAATTGATCAGTTTAGTGTCAAT AGTTACCCATTTAAAAACTTGCGTGAGGCAGTTGATGTACTGTTTCTTCACGGAGGATCTGACA TGGTGATTGCAAAGCAAGCAATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.639610976

Conservation Information
Conserved circRNAs	NA
PMCS	0.639610976

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9072-8776(+)
						
						Potential amino acid sequence
						
							MKSKLSQMQKFAVQLSGISTVVEAMIASFREAAHHLEAMIWCTRHEFLEKICSRHASFATWSAD
VIERKKSAEERQWPEFSGKSSGHNEVNQGILFIEQALQNLGGQQSYRDNEEEAEITCLQNEQSA
FEFSYTIDQFSVNSYPFKNLREAVDVLFLHGGSDMVIAKQAII*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress (validated)

Functional Information
Coding potential	Y
Potential coding position	9072-8776(+)
Potential amino acid sequence	MKSKLSQMQKFAVQLSGISTVVEAMIASFREAAHHLEAMIWCTRHEFLEKICSRHASFATWSAD VIERKKSAEERQWPEFSGKSSGHNEVNQGILFIEQALQNLGGQQSYRDNEEEAEITCLQNEQSA FEFSYTIDQFSVNSYPFKNLREAVDVLFLHGGSDMVIAKQAII*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress (validated)

			
						 Other Information
					
						References
						Wang et al., 2017

circRNA

Detail information of TRIAE_CS42_U_TGACv1_641411_AA2094290_circ_g.1

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