Plant Circular RNA Database

Detail information of AT4G08300_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT4G08300_circ_g.2
					
						ID in PlantcircBase
						ath_circ_029932
					
						Alias
						At_ciR2847, Ath_circ_FC2564, AT4G08300_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 5246283-5246756  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT4G08300						
					
						Parent gene annotation
						
							WAT1-related protein At4g08300
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/6
					
						Tissues
						leaf/root, leaf, aerial
					
						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
						AT4G08300.1:2

General Information
CircRNA Name	AT4G08300_circ_g.2
ID in PlantcircBase	ath_circ_029932
Alias	At_ciR2847, Ath_circ_FC2564, AT4G08300_C1
Organism	Arabidpsis thaliana
Position	chr4: 5246283-5246756 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT4G08300
Parent gene annotation	WAT1-related protein At4g08300
Parent gene strand	+
Alternative splicing	NA
Support reads	3/6
Tissues	leaf/root, leaf, aerial
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	AT4G08300.1:2

			
						 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:ACCACTTGGGCAGGTTTCTTC
 R:TGAAGGTAATGGCGGGAAGTG
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:ACCACTTGGGCAGGTTTCTTC R:TGAAGGTAATGGCGGGAAGTG 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  
						
							CTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGT
AGTATCACCACTTGGGCAGGTTTCTTCATTCTACAAaccacttttggaccagaacttgtactac
ataggaatgaaagccacgtcagcaacgtatagttctgcctttgttaatgcacttcccgccatta
ccttcata

									
								

					

						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: 158
Transcript exons: 5246283-5246336,5246653-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGCTCCTCGGG
CACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATC
ACCACTTGGGCAGGTTTCTTCATTCTACAA
Transcript length: 205
Transcript exons: 5246283-5246349,5246619-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT
GCCCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCCTCCGAGACCA
CTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTTGGGCAGGTTT
CTTCATTCTACAA
Transcript length: 254
Transcript exons: 5246283-5246362,5246583-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT
GCCTTTGTTAATGCACATGGTTATGACGTTGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACT
GCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGG
TTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTTGGGCAGGTTTCTTCATTCTACAA
Transcript length: 279
Transcript exons: 5246283-5246337,5246533-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGCACGAAGTC
TTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGTTGTACAAAGG
TCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCC
TCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTT
GGGCAGGTTTCTTCATTCTACAA
Transcript length: 289
Transcript exons: 5246283-5246362,5246548-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT
GCCTTTGTTAATGCACAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGT
TGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTC
GGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGT
ATCACCACTTGGGCAGGTTTCTTCATTCTACAA
Transcript length: 367
Transcript exons: 5246283-5246399,5246507-5246756
ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT
GCCTTTGTTAATGCACTTCCCGCCATTACCTTCATAATGGCTGTCATTTTCAGGATAGAAACTG
TAAATTTGAAGAAGACACGAAGTCTTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGC
AATGGTTATGACGTTGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTA
CACGGCGGCTCCTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAG
CGGTTATGGGTAGTATCACCACTTGGGCAGGTTTCTTCATTCTACAA
						
					

						Genomic sequence
						
							ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT
GCCTTTGTTAATGCACTTCCCGCCATTACCTTCATAATGGCTGTCATTTTCAGGTAAGTTTGCT
TCTAATTACCAAAGACCAATCATATTAATCATTCTCTATATTTTTTACGTCATAATTTTATAGT
TATTAATTCAAAAATTGCTTAAATTTTATTAGGATAGAAACTGTAAATTTGAAGAAGACACGAA
GTCTTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGTTGTACAA
AGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACC
TCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCA
CTTGGGCAGGTTTCTTCATTCTACAA
						
					

			
		

Sequences
Splice junction sequence	CTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGT AGTATCACCACTTGGGCAGGTTTCTTCATTCTACAAaccacttttggaccagaacttgtactac ataggaatgaaagccacgtcagcaacgtatagttctgcctttgttaatgcacttcccgccatta ccttcata
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: 158 Transcript exons: 5246283-5246336,5246653-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGCTCCTCGGG CACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATC ACCACTTGGGCAGGTTTCTTCATTCTACAA Transcript length: 205 Transcript exons: 5246283-5246349,5246619-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT GCCCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCCTCCGAGACCA CTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTTGGGCAGGTTT CTTCATTCTACAA Transcript length: 254 Transcript exons: 5246283-5246362,5246583-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT GCCTTTGTTAATGCACATGGTTATGACGTTGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACT GCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGG TTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTTGGGCAGGTTTCTTCATTCTACAA Transcript length: 279 Transcript exons: 5246283-5246337,5246533-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGCACGAAGTC TTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGTTGTACAAAGG TCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACCTCC TCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCACTT GGGCAGGTTTCTTCATTCTACAA Transcript length: 289 Transcript exons: 5246283-5246362,5246548-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT GCCTTTGTTAATGCACAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGT TGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTC GGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGT ATCACCACTTGGGCAGGTTTCTTCATTCTACAA Transcript length: 367 Transcript exons: 5246283-5246399,5246507-5246756 ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT GCCTTTGTTAATGCACTTCCCGCCATTACCTTCATAATGGCTGTCATTTTCAGGATAGAAACTG TAAATTTGAAGAAGACACGAAGTCTTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGC AATGGTTATGACGTTGTACAAAGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTA CACGGCGGCTCCTCGGGCACCTCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAG CGGTTATGGGTAGTATCACCACTTGGGCAGGTTTCTTCATTCTACAA
Genomic sequence	ACCACTTTTGGACCAGAACTTGTACTACATAGGAATGAAAGCCACGTCAGCAACGTATAGTTCT GCCTTTGTTAATGCACTTCCCGCCATTACCTTCATAATGGCTGTCATTTTCAGGTAAGTTTGCT TCTAATTACCAAAGACCAATCATATTAATCATTCTCTATATTTTTTACGTCATAATTTTATAGT TATTAATTCAAAAATTGCTTAAATTTTATTAGGATAGAAACTGTAAATTTGAAGAAGACACGAA GTCTTGCAAAAGTGATTGGAACAGCAATAACTGTGGGAGGAGCAATGGTTATGACGTTGTACAA AGGTCCAGCCATTGAGCTCTTTAAGACTGCTCATAGCTCTTTACACGGCGGCTCCTCGGGCACC TCCTCCGAGACCACTGATCAGAATTGGGTTACCGGAACTCTAGCGGTTATGGGTAGTATCACCA CTTGGGCAGGTTTCTTCATTCTACAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.488293806

Conservation Information
Conserved circRNAs	NA
PMCS	0.488293806

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT4G08300_circ_g.2

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