Plant Circular RNA Database

Detail information of AT1G01910_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G01910_circ_g.3
					
						ID in PlantcircBase
						ath_circ_000145
					
						Alias
						1:313567-314802
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 313567-314802  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G01910						
					
						Parent gene annotation
						
							ATPase ASNA1 homolog
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G01910_circ_g.1 AT1G01910_circ_g.2 AT1G01910_circ_g.4 						
					
						Support reads
						1/1
					
						Tissues
						root
					
						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  
						
							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
						AT1G01910.1:5
AT1G01910.2:5
AT1G01910.5:5
AT1G01910.4:5
AT1G01910.3:5

General Information
CircRNA Name	AT1G01910_circ_g.3
ID in PlantcircBase	ath_circ_000145
Alias	1:313567-314802
Organism	Arabidpsis thaliana
Position	chr1: 313567-314802 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G01910
Parent gene annotation	ATPase ASNA1 homolog
Parent gene strand	-
Alternative splicing	AT1G01910_circ_g.1 AT1G01910_circ_g.2 AT1G01910_circ_g.4
Support reads	1/1
Tissues	root
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	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	AT1G01910.1:5 AT1G01910.2:5 AT1G01910.5:5 AT1G01910.4:5 AT1G01910.3:5

			
						 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  
						
							TCCCTTTTCTAGTGTGGCCGGAAACTGTAACAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCA
AACACAATAGTAGCATAATCCATTGTTTGCACCAACaattaaagggaagaacagagccttatct
ttagccactcttgacccgttcgagttcttcttcagctgtttttaactgcaaacgcaatgtgtgt
actttcct

									
								

					

						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: 710
Transcript exons: 313567-313759,313880-313995,314087-314225,314441-314551,
314652-314802
AATTAAAGGGAAGAACAGAGCCTTATCTTTAGCCACTCTTGACCCGTTCGAGTTCTTCTTCAGC
TGTTTTTAACTGCAAACGCAATGTGTGTACTTTCCTCTCCAGCTCCTCTACATTGCTCCTGCTA
GTGGTAGGATGGTACGGCGTCAAGAACTTATGTGAAAACGCCTTTAAGGCTTCAACCCCTGTCA
CCTCTTCCGGAAGCAGAGGAAGCTTTGTGATATTAAAGTCATCGTATAGCATATAAAACTGATC
AAGATACTTCTGTTGCATCCGCATCCTTGCTCTGAGCAACTTGGACTCCACATCTTCGTCGTCG
TATAGTACTTGGTTGATGATAATGTTATGCGTGTCAATCTCAAACTTGGCGAGTTCCTGAACAA
GTCTCTCTGTTTCATAGAGAGACAAGAACTCGGGGATGCAGACACAAACGAACGTAGTCATATC
CGGGTCTTTGAATTGCCGATTTACTTGCTCAATCACATCTTTCAAGCCCTCAAGTCTTCCCAGC
AAAGCATCCTCTCCGAACTCATCCTCCATGCCAAACATACGGCTCATCTGAGTCATCAAGCCAC
CAAATCTACTCTTCAATGACATCAACTTCGAAAGTCCCTTTTCTAGTGTGGCCGGAAACTGTAA
CAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCAAACACAATAGTAGCATAATCCATTGTTTGC
ACCAAC
						
					

						Genomic sequence
						
							AATTAAAGGGAAGAACAGAGCCTTATCTTTAGCCACTCTTGACCCGTTCGAGTTCTTCTTCAGC
TGTTTTTAACTGCAAACGCAATGTGTGTACTTTCCTCTCCAGCTCCTCTACATTGCTCCTGCTA
GTGGTAGGATGGTACGGCGTCAAGAACTTATGTGAAAACGCCTTTAAGGCTTCAACCCCTGTCA
CCTGTGATCCAAACATCCACAACAAGTGTAAATCTCAGGATGTATATTATATAAGGCTTTAGTT
TCATTTTCGTCTTGATCATGTTCCTTCTCATCTATATTGAATGTCATGCGTTCTTACCTCTTCC
GGAAGCAGAGGAAGCTTTGTGATATTAAAGTCATCGTATAGCATATAAAACTGATCAAGATACT
TCTGTTGCATCCGCATCCTTGCTCTGAGCAACTTGGACTCCACATCTACAGAAGACAAGTGTAG
ATAATTCGTCAAATTTGTATGTAAAACAAGTTCAAAACGAGAAGATAGACACGACAGCAAATAA
ATAGGCACCTTCGTCGTCGTATAGTACTTGGTTGATGATAATGTTATGCGTGTCAATCTCAAAC
TTGGCGAGTTCCTGAACAAGTCTCTCTGTTTCATAGAGAGACAAGAACTCGGGGATGCAGACAC
AAACGAACGTAGTCATATCCTACGTAATGGAGCCAAATGTGTCAATTTCTTATCTTAAAATGCA
GAGTTTGTTAGATATGTATCAGAATTTTCACTAATGCAAATGAATGCTGTCAAACCGTATGCTA
CAGAACAATGTGAAGAATCTAAAACTAAACTTCACGAACAGAGTTAAGAAAACAGTCAATGAGT
ACTGAAAATAGCAAAGAACTTAAACAATTGAAAAAATGTTACCGGGTCTTTGAATTGCCGATTT
ACTTGCTCAATCACATCTTTCAAGCCCTCAAGTCTTCCCAGCAAAGCATCCTCTCCGAACTCAT
CCTCCATGCCAAACATACGGCTCATCTGCATTACCAATCAGTTCCATGAAAAATCAGCCAAAGA
AGAAACCAAAGAGCAATATCTGTTGCCAAGCAAACTGAATTTGACAAGCTTAAAGACATGCCTG
AGTCATCAAGCCACCAAATCTACTCTTCAATGACATCAACTTCGAAAGTCCCTTTTCTAGTGTG
GCCGGAAACTGTAACAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCAAACACAATAGTAGCAT
AATCCATTGTTTGCACCAAC
						
					

			
		

Sequences
Splice junction sequence	TCCCTTTTCTAGTGTGGCCGGAAACTGTAACAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCA AACACAATAGTAGCATAATCCATTGTTTGCACCAACaattaaagggaagaacagagccttatct ttagccactcttgacccgttcgagttcttcttcagctgtttttaactgcaaacgcaatgtgtgt actttcct
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: 710 Transcript exons: 313567-313759,313880-313995,314087-314225,314441-314551, 314652-314802 AATTAAAGGGAAGAACAGAGCCTTATCTTTAGCCACTCTTGACCCGTTCGAGTTCTTCTTCAGC TGTTTTTAACTGCAAACGCAATGTGTGTACTTTCCTCTCCAGCTCCTCTACATTGCTCCTGCTA GTGGTAGGATGGTACGGCGTCAAGAACTTATGTGAAAACGCCTTTAAGGCTTCAACCCCTGTCA CCTCTTCCGGAAGCAGAGGAAGCTTTGTGATATTAAAGTCATCGTATAGCATATAAAACTGATC AAGATACTTCTGTTGCATCCGCATCCTTGCTCTGAGCAACTTGGACTCCACATCTTCGTCGTCG TATAGTACTTGGTTGATGATAATGTTATGCGTGTCAATCTCAAACTTGGCGAGTTCCTGAACAA GTCTCTCTGTTTCATAGAGAGACAAGAACTCGGGGATGCAGACACAAACGAACGTAGTCATATC CGGGTCTTTGAATTGCCGATTTACTTGCTCAATCACATCTTTCAAGCCCTCAAGTCTTCCCAGC AAAGCATCCTCTCCGAACTCATCCTCCATGCCAAACATACGGCTCATCTGAGTCATCAAGCCAC CAAATCTACTCTTCAATGACATCAACTTCGAAAGTCCCTTTTCTAGTGTGGCCGGAAACTGTAA CAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCAAACACAATAGTAGCATAATCCATTGTTTGC ACCAAC
Genomic sequence	AATTAAAGGGAAGAACAGAGCCTTATCTTTAGCCACTCTTGACCCGTTCGAGTTCTTCTTCAGC TGTTTTTAACTGCAAACGCAATGTGTGTACTTTCCTCTCCAGCTCCTCTACATTGCTCCTGCTA GTGGTAGGATGGTACGGCGTCAAGAACTTATGTGAAAACGCCTTTAAGGCTTCAACCCCTGTCA CCTGTGATCCAAACATCCACAACAAGTGTAAATCTCAGGATGTATATTATATAAGGCTTTAGTT TCATTTTCGTCTTGATCATGTTCCTTCTCATCTATATTGAATGTCATGCGTTCTTACCTCTTCC GGAAGCAGAGGAAGCTTTGTGATATTAAAGTCATCGTATAGCATATAAAACTGATCAAGATACT TCTGTTGCATCCGCATCCTTGCTCTGAGCAACTTGGACTCCACATCTACAGAAGACAAGTGTAG ATAATTCGTCAAATTTGTATGTAAAACAAGTTCAAAACGAGAAGATAGACACGACAGCAAATAA ATAGGCACCTTCGTCGTCGTATAGTACTTGGTTGATGATAATGTTATGCGTGTCAATCTCAAAC TTGGCGAGTTCCTGAACAAGTCTCTCTGTTTCATAGAGAGACAAGAACTCGGGGATGCAGACAC AAACGAACGTAGTCATATCCTACGTAATGGAGCCAAATGTGTCAATTTCTTATCTTAAAATGCA GAGTTTGTTAGATATGTATCAGAATTTTCACTAATGCAAATGAATGCTGTCAAACCGTATGCTA CAGAACAATGTGAAGAATCTAAAACTAAACTTCACGAACAGAGTTAAGAAAACAGTCAATGAGT ACTGAAAATAGCAAAGAACTTAAACAATTGAAAAAATGTTACCGGGTCTTTGAATTGCCGATTT ACTTGCTCAATCACATCTTTCAAGCCCTCAAGTCTTCCCAGCAAAGCATCCTCTCCGAACTCAT CCTCCATGCCAAACATACGGCTCATCTGCATTACCAATCAGTTCCATGAAAAATCAGCCAAAGA AGAAACCAAAGAGCAATATCTGTTGCCAAGCAAACTGAATTTGACAAGCTTAAAGACATGCCTG AGTCATCAAGCCACCAAATCTACTCTTCAATGACATCAACTTCGAAAGTCCCTTTTCTAGTGTG GCCGGAAACTGTAACAGGCGGAGAGTATGTCCAGTAGGAGCAGTGTCAAACACAATAGTAGCAT AATCCATTGTTTGCACCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.394113629

Conservation Information
Conserved circRNAs	NA
PMCS	0.394113629

			
						 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 AT1G01910_circ_g.3

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