Plant Circular RNA Database

Detail information of AT2G38330_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G38330_circ_g.2
					
						ID in PlantcircBase
						ath_circ_017211
					
						Alias
						2:16065542-16066125
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 16065542-16066125  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G38330						
					
						Parent gene annotation
						
							Protein DETOXIFICATION
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G38330_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						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
						AT2G38330.1:3

General Information
CircRNA Name	AT2G38330_circ_g.2
ID in PlantcircBase	ath_circ_017211
Alias	2:16065542-16066125
Organism	Arabidpsis thaliana
Position	chr2: 16065542-16066125 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G38330
Parent gene annotation	Protein DETOXIFICATION
Parent gene strand	+
Alternative splicing	AT2G38330_circ_g.3
Support reads	1/1
Tissues	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	AT2G38330.1:3

			
						 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  
						
							TACTTGATTGCATTTATTCTTCTATGGAAGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAA
TCAAAGTGGGAAGAGCCAACCAGTACCTCAAATCAGgattcaccaatgcggataccagcagagc
agttcctcagacttcgagcgtatggtgcaccaccaattgttgttgcattggctgcgcaaggagc
ttttcgag

						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: 334
Transcript exons: 16065542-16065677,16065830-16065926,16066025-16066125
GATTCACCAATGCGGATACCAGCAGAGCAGTTCCTCAGACTTCGAGCGTATGGTGCACCACCAA
TTGTTGTTGCATTGGCTGCGCAAGGAGCTTTTCGAGGTTTCAAGGACACAACAACGCCTCTATA
TGCCGTTGTTGCGGGGAATGTACTTAATGCGGTATTGGATCCAATCCTGATATTTGTCCTTGGT
TTTGGTATCTCTGGTGCTGCGGCTGCTACTGTGATTTCTGAATACTTGATTGCATTTATTCTTC
TATGGAAGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAATCAAAGTGGGAAGAGCCAACCA
GTACCTCAAATCAG
						
						Genomic sequence
						
							GATTCACCAATGCGGATACCAGCAGAGCAGTTCCTCAGACTTCGAGCGTATGGTGCACCACCAA
TTGTTGTTGCATTGGCTGCGCAAGGAGCTTTTCGAGGTTTCAAGGACACAACAACGCCTCTATA
TGCCGTTGGCAAGTATTGCACAATCATCTATTTTTTTTGTATTTATGCATGAATGGATCTGAGG
AAATAAATAGTATATGCGCATTAGCTCACTAGACCGTATATATGCATTAGCAGTTTCACATACA
TGTTTCTAATATGGTGAACTCTATATCAACAGTTGCGGGGAATGTACTTAATGCGGTATTGGAT
CCAATCCTGATATTTGTCCTTGGTTTTGGTATCTCTGGTGCTGCGGCTGCTACTGTGATTTCTG
AGTATGTCCAAAAATGTGGTAATAGACTCGTTTTCTAGTAAAGCATATCTATCTTAATTTGTGG
CTTCTTATGTTTCTCACTTGTCAACGTTTCTTCAGATACTTGATTGCATTTATTCTTCTATGGA
AGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAATCAAAGTGGGAAGAGCCAACCAGTACCT
CAAATCAG

Sequences
Splice junction sequence	TACTTGATTGCATTTATTCTTCTATGGAAGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAA TCAAAGTGGGAAGAGCCAACCAGTACCTCAAATCAGgattcaccaatgcggataccagcagagc agttcctcagacttcgagcgtatggtgcaccaccaattgttgttgcattggctgcgcaaggagc ttttcgag
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: 334 Transcript exons: 16065542-16065677,16065830-16065926,16066025-16066125 GATTCACCAATGCGGATACCAGCAGAGCAGTTCCTCAGACTTCGAGCGTATGGTGCACCACCAA TTGTTGTTGCATTGGCTGCGCAAGGAGCTTTTCGAGGTTTCAAGGACACAACAACGCCTCTATA TGCCGTTGTTGCGGGGAATGTACTTAATGCGGTATTGGATCCAATCCTGATATTTGTCCTTGGT TTTGGTATCTCTGGTGCTGCGGCTGCTACTGTGATTTCTGAATACTTGATTGCATTTATTCTTC TATGGAAGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAATCAAAGTGGGAAGAGCCAACCA GTACCTCAAATCAG
Genomic sequence	GATTCACCAATGCGGATACCAGCAGAGCAGTTCCTCAGACTTCGAGCGTATGGTGCACCACCAA TTGTTGTTGCATTGGCTGCGCAAGGAGCTTTTCGAGGTTTCAAGGACACAACAACGCCTCTATA TGCCGTTGGCAAGTATTGCACAATCATCTATTTTTTTTGTATTTATGCATGAATGGATCTGAGG AAATAAATAGTATATGCGCATTAGCTCACTAGACCGTATATATGCATTAGCAGTTTCACATACA TGTTTCTAATATGGTGAACTCTATATCAACAGTTGCGGGGAATGTACTTAATGCGGTATTGGAT CCAATCCTGATATTTGTCCTTGGTTTTGGTATCTCTGGTGCTGCGGCTGCTACTGTGATTTCTG AGTATGTCCAAAAATGTGGTAATAGACTCGTTTTCTAGTAAAGCATATCTATCTTAATTTGTGG CTTCTTATGTTTCTCACTTGTCAACGTTTCTTCAGATACTTGATTGCATTTATTCTTCTATGGA AGTTGAATGAGAATGTAGTTTTGCTCTCTCCTCAAATCAAAGTGGGAAGAGCCAACCAGTACCT CAAATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.304282432

Conservation Information
Conserved circRNAs	NA
PMCS	0.304282432

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5637 						
					
						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	ath-miR5637
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G38330_circ_g.2

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