Plant Circular RNA Database

Detail information of AT1G18160_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G18160_circ_g.1
					
						ID in PlantcircBase
						ath_circ_003228
					
						Alias
						1:6250437-6252504
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 6250437-6252504  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G18160						
					
						Parent gene annotation
						
							Protein kinase superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G18160_circ_g.2 AT1G18160_circ_g.3 						
					
						Support reads
						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  
						
							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
						AT1G18160.1:5
AT1G18160.2:5

General Information
CircRNA Name	AT1G18160_circ_g.1
ID in PlantcircBase	ath_circ_003228
Alias	1:6250437-6252504
Organism	Arabidpsis thaliana
Position	chr1: 6250437-6252504 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G18160
Parent gene annotation	Protein kinase superfamily protein
Parent gene strand	+
Alternative splicing	AT1G18160_circ_g.2 AT1G18160_circ_g.3
Support reads	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	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	AT1G18160.1:5 AT1G18160.2:5

			
						 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  
						
							TCCGGATGATGAGAAGGCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAACCCGCCC
ACCAAATCTCTCAATTGTTACAGAATTTCTTCCTCGgttttgtgtgatagtgtcggcgttcctt
gtcgaatagtcaaaggacagcaatataccggttcagatgatgtggcaatgaactccattaagac
tgatgatg

									
								

					

						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: 1451
Transcript exons: 6250437-6250540,6250893-6252028,6252106-6252146,6252253-
6252321,6252404-6252504
GTTTTGTGTGATAGTGTCGGCGTTCCTTGTCGAATAGTCAAAGGACAGCAATATACCGGTTCAG
ATGATGTGGCAATGAACTCCATTAAGACTGATGATGGCAGGGAGTACATTGTTGATCTCATGGG
AGATCCAGGCACGCTTATCCCCGCTGATGCAGCTGGACTACAAATGGACTTTGATGATTCTGTC
TACTCTGCCAGTCCCAGAGATGTTGATTCATCTCATGTAGCTTCTTCCAGCAGTGGGGTCGAGA
GCTCAATTGAAGAACACACAGAATCTTGGTCAGCGGAACATCGTTCTAGGACCAAGGGTTCCCG
GGAGGAAAACCAATCTGCAGGTGGAGGGGATCTCATGATTCCAAATATTAGGGAAGCTGTGGGA
AGTCAAAAGGCTCCTGTTCAACATCTTTCCAGCAAGCCTACTCATTCTTTCACTCATGCCAGAT
CACCTTCGTGGACTGAAGGTGTTAGCTCTCCAGCTGGACGCAGGATGAAAGTCAAAGATGTTTC
ACAATATATGATTGATGCTGCCAAAGAGAATCCACAACTAGCTCAGAAGCTTCATGATGTGTTA
CTTGAAAGTGGAGTTGTAGCTCCTCGAAATTTATTTTCGGAAGTCTATTCAGAGTCAATGGAGG
CAACAGGTGAAATCAAATCTGTGGCTGAATCCAATGATGAGAAAGGGAAAGATTTTGGAACAAT
CCAGCAAGGAAGAAACCAGAGCAACCTTGGCCCTGTGAGGTTTTTGCCTCCTCTTCCAAGACCG
CAATCTAAAGCAATTACCCATGACCTACGTGAACATTCAGGATCTGGACTCGGTCATTTGTCTG
AACATTGCAATATTGATGGTCACTCTGATTCCTCACATTCTGAAACATCTACTGACTATCCCAG
AAATGTTCCTGTTGCCGTAGCTGCAGCGGCTGTTGTTGCGTCTTCCATGGTTGTTGCTGCCGCC
AAGTCAGCAAACTCGGATTCCTCCACTTTAGAACTTTCTGCTGCAGCTGCTGCTGCAGTTATGG
CGACAGCTGCAGCAGTGAGCAGGCAGTTTGAACTAGATTCACTTAGCAACGGGGATGCTGGTTC
TGGTGGGCTTCATGGGGTAGATTCAGGAGGAGAACGAATATCCGACAGATCTATTGGCAATGAA
AGTTCAAAATCTGATGCTGCAATTGATGATGTAGCTGAATGCGAGATTTTGTGGGAGGAAATTA
CTGTGGCTGAGCGTATCGGACTGGGATCATACGGAGAGGTATATAGGGGAGATTGGCATGGAAC
TGCAGTGGCTGTCAAGAAGTTCATTGACCAAGATATTACTGGAGAGGCACTGGAGGAATTCAGA
AGTGAGGTCCGGATGATGAGAAGGCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAA
CCCGCCCACCAAATCTCTCAATTGTTACAGAATTTCTTCCTCG
						
					

						Genomic sequence
						
							GTTTTGTGTGATAGTGTCGGCGTTCCTTGTCGAATAGTCAAAGGACAGCAATATACCGGTTCAG
ATGATGTGGCAATGAACTCCATTAAGACTGATGATGGCAGGTGACTTTCAAATTAAATTCAATC
GCTGTGTAATTTTAACAATTTCTCTATCATTTGGAGAGAAAATATATATATATATTGTCACCAA
ATGTGTGCGTGTAAAAAATGAAACTATGTGCATATGGACTTGGGGTGTGTGTGCTATTTATAGC
TAACTCACATCTCTGAAAAGGTTAGAGCAAATACTGAGGCTTGATAAAAGTGTAACTTTCTTTG
GTCTAAGCAACAATACTCTTTAGAAATGAAAGTACGATTAAGCATGTTTCATGCTTTGTACAGT
GGTTCTTTCTATTGTTATTGCAGTCTGCAGTTGCAAATTATTTTCCTTAACGAATCCAAATGTG
AATTTCAGGGAGTACATTGTTGATCTCATGGGAGATCCAGGCACGCTTATCCCCGCTGATGCAG
CTGGACTACAAATGGACTTTGATGATTCTGTCTACTCTGCCAGTCCCAGAGATGTTGATTCATC
TCATGTAGCTTCTTCCAGCAGTGGGGTCGAGAGCTCAATTGAAGAACACACAGAATCTTGGTCA
GCGGAACATCGTTCTAGGACCAAGGGTTCCCGGGAGGAAAACCAATCTGCAGGTGGAGGGGATC
TCATGATTCCAAATATTAGGGAAGCTGTGGGAAGTCAAAAGGCTCCTGTTCAACATCTTTCCAG
CAAGCCTACTCATTCTTTCACTCATGCCAGATCACCTTCGTGGACTGAAGGTGTTAGCTCTCCA
GCTGGACGCAGGATGAAAGTCAAAGATGTTTCACAATATATGATTGATGCTGCCAAAGAGAATC
CACAACTAGCTCAGAAGCTTCATGATGTGTTACTTGAAAGTGGAGTTGTAGCTCCTCGAAATTT
ATTTTCGGAAGTCTATTCAGAGTCAATGGAGGCAACAGGTGAAATCAAATCTGTGGCTGAATCC
AATGATGAGAAAGGGAAAGATTTTGGAACAATCCAGCAAGGAAGAAACCAGAGCAACCTTGGCC
CTGTGAGGTTTTTGCCTCCTCTTCCAAGACCGCAATCTAAAGCAATTACCCATGACCTACGTGA
ACATTCAGGATCTGGACTCGGTCATTTGTCTGAACATTGCAATATTGATGGTCACTCTGATTCC
TCACATTCTGAAACATCTACTGACTATCCCAGAAATGTTCCTGTTGCCGTAGCTGCAGCGGCTG
TTGTTGCGTCTTCCATGGTTGTTGCTGCCGCCAAGTCAGCAAACTCGGATTCCTCCACTTTAGA
ACTTTCTGCTGCAGCTGCTGCTGCAGTTATGGCGACAGCTGCAGCAGTGAGCAGGCAGTTTGAA
CTAGATTCACTTAGCAACGGGGATGCTGGTTCTGGTGGGCTTCATGGGGTAGATTCAGGAGGAG
AACGAATATCCGACAGATCTATTGGCAATGAAAGTTCAAAATCTGATGCTGCAATTGATGATGT
AGCTGAATGCGAGATTTTGTGGGAGGAAATTACTGTGGCTGAGCGTATCGGACTGGGTATATGC
TCTACTATATGCTTTAGTGTAACTAGTGCCACAACAGTAAGTACTTTATATTTATGTCTTTTGA
TGCAGGATCATACGGAGAGGTATATAGGGGAGATTGGCATGGAACTGTGAGTATCTCATATTTC
TTTAGCTTTTACTAATTAGCTGACGACAAGAGAAACAATGTAAATTTGGTTATTATTTTCAATA
TCAATGAAACTCTTGATTTGGTAGGCAGTGGCTGTCAAGAAGTTCATTGACCAAGATATTACTG
GAGAGGCACTGGAGGAATTCAGAAGTGAGGTATAAGCCTTTCATTCTCTGGAAATTCTTGTACC
CTTTCAAGTTTCACAATTCGTAACATCTCATTTCAATTTGATGCAAGGTCCGGATGATGAGAAG
GCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAACCCGCCCACCAAATCTCTCAATT
GTTACAGAATTTCTTCCTCG
						
					

			
		

Sequences
Splice junction sequence	TCCGGATGATGAGAAGGCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAACCCGCCC ACCAAATCTCTCAATTGTTACAGAATTTCTTCCTCGgttttgtgtgatagtgtcggcgttcctt gtcgaatagtcaaaggacagcaatataccggttcagatgatgtggcaatgaactccattaagac tgatgatg
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: 1451 Transcript exons: 6250437-6250540,6250893-6252028,6252106-6252146,6252253- 6252321,6252404-6252504 GTTTTGTGTGATAGTGTCGGCGTTCCTTGTCGAATAGTCAAAGGACAGCAATATACCGGTTCAG ATGATGTGGCAATGAACTCCATTAAGACTGATGATGGCAGGGAGTACATTGTTGATCTCATGGG AGATCCAGGCACGCTTATCCCCGCTGATGCAGCTGGACTACAAATGGACTTTGATGATTCTGTC TACTCTGCCAGTCCCAGAGATGTTGATTCATCTCATGTAGCTTCTTCCAGCAGTGGGGTCGAGA GCTCAATTGAAGAACACACAGAATCTTGGTCAGCGGAACATCGTTCTAGGACCAAGGGTTCCCG GGAGGAAAACCAATCTGCAGGTGGAGGGGATCTCATGATTCCAAATATTAGGGAAGCTGTGGGA AGTCAAAAGGCTCCTGTTCAACATCTTTCCAGCAAGCCTACTCATTCTTTCACTCATGCCAGAT CACCTTCGTGGACTGAAGGTGTTAGCTCTCCAGCTGGACGCAGGATGAAAGTCAAAGATGTTTC ACAATATATGATTGATGCTGCCAAAGAGAATCCACAACTAGCTCAGAAGCTTCATGATGTGTTA CTTGAAAGTGGAGTTGTAGCTCCTCGAAATTTATTTTCGGAAGTCTATTCAGAGTCAATGGAGG CAACAGGTGAAATCAAATCTGTGGCTGAATCCAATGATGAGAAAGGGAAAGATTTTGGAACAAT CCAGCAAGGAAGAAACCAGAGCAACCTTGGCCCTGTGAGGTTTTTGCCTCCTCTTCCAAGACCG CAATCTAAAGCAATTACCCATGACCTACGTGAACATTCAGGATCTGGACTCGGTCATTTGTCTG AACATTGCAATATTGATGGTCACTCTGATTCCTCACATTCTGAAACATCTACTGACTATCCCAG AAATGTTCCTGTTGCCGTAGCTGCAGCGGCTGTTGTTGCGTCTTCCATGGTTGTTGCTGCCGCC AAGTCAGCAAACTCGGATTCCTCCACTTTAGAACTTTCTGCTGCAGCTGCTGCTGCAGTTATGG CGACAGCTGCAGCAGTGAGCAGGCAGTTTGAACTAGATTCACTTAGCAACGGGGATGCTGGTTC TGGTGGGCTTCATGGGGTAGATTCAGGAGGAGAACGAATATCCGACAGATCTATTGGCAATGAA AGTTCAAAATCTGATGCTGCAATTGATGATGTAGCTGAATGCGAGATTTTGTGGGAGGAAATTA CTGTGGCTGAGCGTATCGGACTGGGATCATACGGAGAGGTATATAGGGGAGATTGGCATGGAAC TGCAGTGGCTGTCAAGAAGTTCATTGACCAAGATATTACTGGAGAGGCACTGGAGGAATTCAGA AGTGAGGTCCGGATGATGAGAAGGCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAA CCCGCCCACCAAATCTCTCAATTGTTACAGAATTTCTTCCTCG
Genomic sequence	GTTTTGTGTGATAGTGTCGGCGTTCCTTGTCGAATAGTCAAAGGACAGCAATATACCGGTTCAG ATGATGTGGCAATGAACTCCATTAAGACTGATGATGGCAGGTGACTTTCAAATTAAATTCAATC GCTGTGTAATTTTAACAATTTCTCTATCATTTGGAGAGAAAATATATATATATATTGTCACCAA ATGTGTGCGTGTAAAAAATGAAACTATGTGCATATGGACTTGGGGTGTGTGTGCTATTTATAGC TAACTCACATCTCTGAAAAGGTTAGAGCAAATACTGAGGCTTGATAAAAGTGTAACTTTCTTTG GTCTAAGCAACAATACTCTTTAGAAATGAAAGTACGATTAAGCATGTTTCATGCTTTGTACAGT GGTTCTTTCTATTGTTATTGCAGTCTGCAGTTGCAAATTATTTTCCTTAACGAATCCAAATGTG AATTTCAGGGAGTACATTGTTGATCTCATGGGAGATCCAGGCACGCTTATCCCCGCTGATGCAG CTGGACTACAAATGGACTTTGATGATTCTGTCTACTCTGCCAGTCCCAGAGATGTTGATTCATC TCATGTAGCTTCTTCCAGCAGTGGGGTCGAGAGCTCAATTGAAGAACACACAGAATCTTGGTCA GCGGAACATCGTTCTAGGACCAAGGGTTCCCGGGAGGAAAACCAATCTGCAGGTGGAGGGGATC TCATGATTCCAAATATTAGGGAAGCTGTGGGAAGTCAAAAGGCTCCTGTTCAACATCTTTCCAG CAAGCCTACTCATTCTTTCACTCATGCCAGATCACCTTCGTGGACTGAAGGTGTTAGCTCTCCA GCTGGACGCAGGATGAAAGTCAAAGATGTTTCACAATATATGATTGATGCTGCCAAAGAGAATC CACAACTAGCTCAGAAGCTTCATGATGTGTTACTTGAAAGTGGAGTTGTAGCTCCTCGAAATTT ATTTTCGGAAGTCTATTCAGAGTCAATGGAGGCAACAGGTGAAATCAAATCTGTGGCTGAATCC AATGATGAGAAAGGGAAAGATTTTGGAACAATCCAGCAAGGAAGAAACCAGAGCAACCTTGGCC CTGTGAGGTTTTTGCCTCCTCTTCCAAGACCGCAATCTAAAGCAATTACCCATGACCTACGTGA ACATTCAGGATCTGGACTCGGTCATTTGTCTGAACATTGCAATATTGATGGTCACTCTGATTCC TCACATTCTGAAACATCTACTGACTATCCCAGAAATGTTCCTGTTGCCGTAGCTGCAGCGGCTG TTGTTGCGTCTTCCATGGTTGTTGCTGCCGCCAAGTCAGCAAACTCGGATTCCTCCACTTTAGA ACTTTCTGCTGCAGCTGCTGCTGCAGTTATGGCGACAGCTGCAGCAGTGAGCAGGCAGTTTGAA CTAGATTCACTTAGCAACGGGGATGCTGGTTCTGGTGGGCTTCATGGGGTAGATTCAGGAGGAG AACGAATATCCGACAGATCTATTGGCAATGAAAGTTCAAAATCTGATGCTGCAATTGATGATGT AGCTGAATGCGAGATTTTGTGGGAGGAAATTACTGTGGCTGAGCGTATCGGACTGGGTATATGC TCTACTATATGCTTTAGTGTAACTAGTGCCACAACAGTAAGTACTTTATATTTATGTCTTTTGA TGCAGGATCATACGGAGAGGTATATAGGGGAGATTGGCATGGAACTGTGAGTATCTCATATTTC TTTAGCTTTTACTAATTAGCTGACGACAAGAGAAACAATGTAAATTTGGTTATTATTTTCAATA TCAATGAAACTCTTGATTTGGTAGGCAGTGGCTGTCAAGAAGTTCATTGACCAAGATATTACTG GAGAGGCACTGGAGGAATTCAGAAGTGAGGTATAAGCCTTTCATTCTCTGGAAATTCTTGTACC CTTTCAAGTTTCACAATTCGTAACATCTCATTTCAATTTGATGCAAGGTCCGGATGATGAGAAG GCTCAGACACCCTAATATTGTTCTCTTCATGGGAGCTGTAACCCGCCCACCAAATCTCTCAATT GTTACAGAATTTCTTCCTCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.23047933

Conservation Information
Conserved circRNAs	NA
PMCS	0.23047933

			
						 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 AT1G18160_circ_g.1

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