Plant Circular RNA Database

Detail information of AT4G24830_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT4G24830_circ_g.2
					
						ID in PlantcircBase
						ath_circ_032661
					
						Alias
						4:12793966-12795589
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 12793966-12795589  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G24830						
					
						Parent gene annotation
						
							Argininosuccinate synthase, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G24830_circ_g.3 AT4G24830_circ_g.4 AT4G24830_circ_g.5 AT4G24830_circ_g.6 						
					
						Support reads
						1/1/1/1
					
						Tissues
						seedling;root;leaf
					
						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
						AT4G24830.1:8
AT4G24830.2:8

General Information
CircRNA Name	AT4G24830_circ_g.2
ID in PlantcircBase	ath_circ_032661
Alias	4:12793966-12795589
Organism	Arabidpsis thaliana
Position	chr4: 12793966-12795589 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G24830
Parent gene annotation	Argininosuccinate synthase, chloroplastic
Parent gene strand	-
Alternative splicing	AT4G24830_circ_g.3 AT4G24830_circ_g.4 AT4G24830_circ_g.5 AT4G24830_circ_g.6
Support reads	1/1/1/1
Tissues	seedling;root;leaf
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	AT4G24830.1:8 AT4G24830.2:8

			
						 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  
						
							TCGAAGAAACAACAAGTATGAGCATCGATTTCAAATGGATGTACCTCTTGGAACTGGGAAGTAG
TTTTTGGAACAGCTACATTCTGACATTTTAAGCTACtcaggctgatcaggagcatcttcaggat
ccacactcatcatgtacatatctttctttggctcgtttgctggatcttccaatagatcaccctt
tcaacaaa

									
								

					

						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: 859
Transcript exons: 12793966-12794054,12794183-12794368,12794458-12794532,12
794650-12794832,12794940-12794988,12795108-12795246,1279
5365-12795446,12795534-12795589
TCAGGCTGATCAGGAGCATCTTCAGGATCCACACTCATCATGTACATATCTTTCTTTGGCTCGT
TTGCTGGATCTTCCAATAGATCACCCTCATGACTAAGGTGCCACAGGTTTCTGTCCCGGCTGTA
AATGGACTTCTTTGTCACTGGGACGGGAACATTATGCTTCTTTGCATACTCAATAGCATCTTCT
CGGCCTTGGATTTCCCATTCTCTCCATGGTGCCACAACTTTAAGTTCAGGGTTTAATGAAAAGA
AGGTGAGCTCAAACCGAACCTGGTCATTTCCTTTTCCAGTACACCCATGTGCAACGGCATCAGC
TCCAACCTCTGCTGCTACATCAACCATGGCCTTAGCAATGACAGGTCGAGCCATGGAGGTACCA
AGCAAGTATTTTCGTTCATAGATGGCACCAGCTCTAAGACAAGGGAAGATGAAATCTTTCACAA
ACTCCTCTGTGAGATCCTTAACGACCAACTGAGAAGCACCACTAGCCTTAGCCTTTTGTTCTAA
ACCCTCTAACTCTTTTATGCCCTGACCAACATCAGCAGTGAAGCACACAACTTCACAACCATAG
TTCTCCTTAAGCCATGGCACAATGACAGAGGTGTCTAAGCCTCCACTGTAAGCTAGAACGACCT
TTTTCAGTTTTCCACGAAGTCCAGCCTCCTTTGAATCAGTAGTCAAGGCGGTTCCATCACCGGA
TAGAACAGCTCGAATAGCTTGATTCTTGCAGCTGCGGGATCCGGTAACATGACCGGTAACAACG
GCATTGCCAACAAGCTGGCTTCGTTTCAGAGATAACTCTTGGAACTGGGAAGTAGTTTTTGGAA
CAGCTACATTCTGACATTTTAAGCTAC
						
					

						Genomic sequence
						
							TCAGGCTGATCAGGAGCATCTTCAGGATCCACACTCATCATGTACATATCTTTCTTTGGCTCGT
TTGCTGGATCTTCCAATAGATCACCCTTTCAACAAAACACATAAGTTTGATATCAGAGCATGAG
ACACATTATTAGGAACTGAGCAATGTGACAAACTGGATCAATTTGTATCCAAAAGAAAAATGCG
AACCAACACTTGTCTTTTACTTTACCTCATGACTAAGGTGCCACAGGTTTCTGTCCCGGCTGTA
AATGGACTTCTTTGTCACTGGGACGGGAACATTATGCTTCTTTGCATACTCAATAGCATCTTCT
CGGCCTTGGATTTCCCATTCTCTCCATGGTGCCACAACTTTAAGTTCAGGGTTTAATGAAAAGA
AGGTGAGCTCAAACCGAACCTGGTCAATCAATCAGTACAAAAAAGTAATGTAAGAATCAATGCG
TGTTTTCCAATGTGACGCATTAGCAAGACATTCCAAGTACTTGCCTGGTCATTTCCTTTTCCAG
TACACCCATGTGCAACGGCATCAGCTCCAACCTCTGCTGCTACATCAACCATGGCCTAATCATT
TAGAAAATGTATTAGTGACAATATGTAATCCAAAAGATATATCCAGATATTAGAAATAGTGGGG
GTAGTCCTCACAAGTCAATCATATAAAACCATTCGAAATGTTACCTTAGCAATGACAGGTCGAG
CCATGGAGGTACCAAGCAAGTATTTTCGTTCATAGATGGCACCAGCTCTAAGACAAGGGAAGAT
GAAATCTTTCACAAACTCCTCTGTGAGATCCTTAACGACCAACTGAGAAGCACCACTAGCCTTA
GCCTTTTGTTCTAAACCCTCTAACTCTTTTATGCCCTTCACATCAAAGTATTTAGAGGTTGAGA
AGACATAAGCAGATTGCAACAACATAAAACTTCATTTCTTAACTAAAACAGTTGACATGTGGCA
TTTTTGTGATGTACCTGACCAACATCAGCAGTGAAGCACACAACTTCACAACCATAGTTCTCCC
TAGAAAACAAATAGTTACATATAAGGAAGGTCAGACTAGTTGTTTCATAACCAGAGGAAGATTC
AAAACGTATTCTTGTTAGAGGTCAGAAATAAACTCAAGAAAAAGGAAAACATACTTAAGCCATG
GCACAATGACAGAGGTGTCTAAGCCTCCACTGTAAGCTAGAACGACCTTTTTCAGTTTTCCACG
AAGTCCAGCCTCCTTTGAATCAGTAGTCAAGGCGGTTCCATCACCGGATAGAACAGCTCGAATA
GCTGTGCAATATTCAAGACAGCAAATTGTTTAAAACGTACTAATGGAAAATTTCATCAAGAGGG
GATAAAGAATATATGTTAAAGGAAATGGATTGATTCAGTGTAATGCTAACTTTACCTTGATTCT
TGCAGCTGCGGGATCCGGTAACATGACCGGTAACAACGGCATTGCCAACAAGCTGGCTTCGTTT
CAGAGATAACTGCAAATTCAGTAAAAAGCAAATACAGAATTTAGTTGTATCATCGAAGAAACAA
CAAGTATGAGCATCGATTTCAAATGGATGTACCTCTTGGAACTGGGAAGTAGTTTTTGGAACAG
CTACATTCTGACATTTTAAGCTAC
						
					

			
		

Sequences
Splice junction sequence	TCGAAGAAACAACAAGTATGAGCATCGATTTCAAATGGATGTACCTCTTGGAACTGGGAAGTAG TTTTTGGAACAGCTACATTCTGACATTTTAAGCTACtcaggctgatcaggagcatcttcaggat ccacactcatcatgtacatatctttctttggctcgtttgctggatcttccaatagatcaccctt tcaacaaa
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: 859 Transcript exons: 12793966-12794054,12794183-12794368,12794458-12794532,12 794650-12794832,12794940-12794988,12795108-12795246,1279 5365-12795446,12795534-12795589 TCAGGCTGATCAGGAGCATCTTCAGGATCCACACTCATCATGTACATATCTTTCTTTGGCTCGT TTGCTGGATCTTCCAATAGATCACCCTCATGACTAAGGTGCCACAGGTTTCTGTCCCGGCTGTA AATGGACTTCTTTGTCACTGGGACGGGAACATTATGCTTCTTTGCATACTCAATAGCATCTTCT CGGCCTTGGATTTCCCATTCTCTCCATGGTGCCACAACTTTAAGTTCAGGGTTTAATGAAAAGA AGGTGAGCTCAAACCGAACCTGGTCATTTCCTTTTCCAGTACACCCATGTGCAACGGCATCAGC TCCAACCTCTGCTGCTACATCAACCATGGCCTTAGCAATGACAGGTCGAGCCATGGAGGTACCA AGCAAGTATTTTCGTTCATAGATGGCACCAGCTCTAAGACAAGGGAAGATGAAATCTTTCACAA ACTCCTCTGTGAGATCCTTAACGACCAACTGAGAAGCACCACTAGCCTTAGCCTTTTGTTCTAA ACCCTCTAACTCTTTTATGCCCTGACCAACATCAGCAGTGAAGCACACAACTTCACAACCATAG TTCTCCTTAAGCCATGGCACAATGACAGAGGTGTCTAAGCCTCCACTGTAAGCTAGAACGACCT TTTTCAGTTTTCCACGAAGTCCAGCCTCCTTTGAATCAGTAGTCAAGGCGGTTCCATCACCGGA TAGAACAGCTCGAATAGCTTGATTCTTGCAGCTGCGGGATCCGGTAACATGACCGGTAACAACG GCATTGCCAACAAGCTGGCTTCGTTTCAGAGATAACTCTTGGAACTGGGAAGTAGTTTTTGGAA CAGCTACATTCTGACATTTTAAGCTAC
Genomic sequence	TCAGGCTGATCAGGAGCATCTTCAGGATCCACACTCATCATGTACATATCTTTCTTTGGCTCGT TTGCTGGATCTTCCAATAGATCACCCTTTCAACAAAACACATAAGTTTGATATCAGAGCATGAG ACACATTATTAGGAACTGAGCAATGTGACAAACTGGATCAATTTGTATCCAAAAGAAAAATGCG AACCAACACTTGTCTTTTACTTTACCTCATGACTAAGGTGCCACAGGTTTCTGTCCCGGCTGTA AATGGACTTCTTTGTCACTGGGACGGGAACATTATGCTTCTTTGCATACTCAATAGCATCTTCT CGGCCTTGGATTTCCCATTCTCTCCATGGTGCCACAACTTTAAGTTCAGGGTTTAATGAAAAGA AGGTGAGCTCAAACCGAACCTGGTCAATCAATCAGTACAAAAAAGTAATGTAAGAATCAATGCG TGTTTTCCAATGTGACGCATTAGCAAGACATTCCAAGTACTTGCCTGGTCATTTCCTTTTCCAG TACACCCATGTGCAACGGCATCAGCTCCAACCTCTGCTGCTACATCAACCATGGCCTAATCATT TAGAAAATGTATTAGTGACAATATGTAATCCAAAAGATATATCCAGATATTAGAAATAGTGGGG GTAGTCCTCACAAGTCAATCATATAAAACCATTCGAAATGTTACCTTAGCAATGACAGGTCGAG CCATGGAGGTACCAAGCAAGTATTTTCGTTCATAGATGGCACCAGCTCTAAGACAAGGGAAGAT GAAATCTTTCACAAACTCCTCTGTGAGATCCTTAACGACCAACTGAGAAGCACCACTAGCCTTA GCCTTTTGTTCTAAACCCTCTAACTCTTTTATGCCCTTCACATCAAAGTATTTAGAGGTTGAGA AGACATAAGCAGATTGCAACAACATAAAACTTCATTTCTTAACTAAAACAGTTGACATGTGGCA TTTTTGTGATGTACCTGACCAACATCAGCAGTGAAGCACACAACTTCACAACCATAGTTCTCCC TAGAAAACAAATAGTTACATATAAGGAAGGTCAGACTAGTTGTTTCATAACCAGAGGAAGATTC AAAACGTATTCTTGTTAGAGGTCAGAAATAAACTCAAGAAAAAGGAAAACATACTTAAGCCATG GCACAATGACAGAGGTGTCTAAGCCTCCACTGTAAGCTAGAACGACCTTTTTCAGTTTTCCACG AAGTCCAGCCTCCTTTGAATCAGTAGTCAAGGCGGTTCCATCACCGGATAGAACAGCTCGAATA GCTGTGCAATATTCAAGACAGCAAATTGTTTAAAACGTACTAATGGAAAATTTCATCAAGAGGG GATAAAGAATATATGTTAAAGGAAATGGATTGATTCAGTGTAATGCTAACTTTACCTTGATTCT TGCAGCTGCGGGATCCGGTAACATGACCGGTAACAACGGCATTGCCAACAAGCTGGCTTCGTTT CAGAGATAACTGCAAATTCAGTAAAAAGCAAATACAGAATTTAGTTGTATCATCGAAGAAACAA CAAGTATGAGCATCGATTTCAAATGGATGTACCTCTTGGAACTGGGAAGTAGTTTTTGGAACAG CTACATTCTGACATTTTAAGCTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229090892

Conservation Information
Conserved circRNAs	NA
PMCS	0.229090892

			
						 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 AT4G24830_circ_g.2

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