Plant Circular RNA Database

Detail information of AT1G55150_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G55150_circ_g.1
					
						ID in PlantcircBase
						ath_circ_007457
					
						Alias
						1:20574880-20576977
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 20574880-20576977  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G55150						
					
						Parent gene annotation
						
							DEA(D/H)-box RNA helicase family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G55150_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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
						AT1G55150.1:8
AT1G55150.2:8

General Information
CircRNA Name	AT1G55150_circ_g.1
ID in PlantcircBase	ath_circ_007457
Alias	1:20574880-20576977
Organism	Arabidpsis thaliana
Position	chr1: 20574880-20576977 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G55150
Parent gene annotation	DEA(D/H)-box RNA helicase family protein
Parent gene strand	+
Alternative splicing	AT1G55150_circ_g.2
Support reads	2
Tissues	seedling
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	AT1G55150.1:8 AT1G55150.2:8

			
						 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  
						
							AGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGGACAGAAAGTGAGTCCCGAATTGG
CTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAGtgactcagggtttggtgggacttcatca
tatggaagctcaggtagtcatacatctagcaaaaaggataacgatggcaatgaatctccaagga
agctagat

									
								

					

						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: 1403
Transcript exons: 20574880-20575145,20575279-20575458,20575556-20575717,20
575823-20575977,20576062-20576154,20576245-20576330,2057
6429-20576655,20576744-20576977
TGACTCAGGGTTTGGTGGGACTTCATCATATGGAAGCTCAGGTAGTCATACATCTAGCAAAAAG
GATAACGATGGCAATGAATCTCCAAGGAAGCTAGATTTAGATGGTTTGACTCCTTTTGAGAAGA
ATTTTTATGTCGAGTCTCCCGCTGTGGCGGCTATGACAGACACAGAAGTAGAGGAATATCGAAA
GCTAAGGGAAATTACTGTTGAAGGCAAAGATATTCCAAAACCTGTCAAGAGTTTTCGTGATGTT
GGCTTTCCTGATTATGTTTTGGAAGAGGTTAAGAAGGCTGGTTTTACTGAACCTACGCCTATAC
AATCTCAGGGGTGGCCAATGGCTATGAAGGGACGTGATCTTATCGGCATTGCTGAAACTGGTTC
TGGAAAGACTCTTTCTTACTTACTACCTGCTATTGTCCATGTTAATGCCCAACCAATGTTAGCT
CATGGTGACGGCCCAATCGTCTTGGTTCTTGCTCCCACTCGTGAACTGGCTGTGCAGATACAGC
AAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCC
AAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGGTGTGGAGATCGTTATAGCTACTCCTGGGAGG
TTAATAGACATGATGGAGTCGAACAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATG
AGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATATTCG
GCCAGACCGTCAAACTTTGTACTGGAGTGCCACTTGGCCTAAGGAGGTGGAACAACTATCGAAG
AAGTTTCTTTATAACCCATACAAAGTGATAATAGGATCTTCTGATTTGAAAGCTAACCGTGCAA
TTCGTCAAATTGTTGATGTCATTTCCGAAAGCCAAAAGTATAACAAGTTGGTGAAACTGCTTGA
GGACATAATGGATGGAAGCAGAATTCTTGTCTTCCTCGATACAAAAAAGGGCTGTGACCAAATC
ACTCGTCAGCTTCGCATGGATGGTTGGCCTGCTTTGTCAATACATGGAGATAAAAGTCAAGCGG
AAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGT
TGCAGCTCGTGGATTAGACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCA
CTGGAGGATTATGTTCACAGGATTGGACGAACAGGTAGAGCCGGGGCTAAAGGAACAGCTTACA
CTTTCTTCACAGTTGCAAATGCGAGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGG
ACAGAAAGTGAGTCCCGAATTGGCTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAG
						
					

						Genomic sequence
						
							TGACTCAGGGTTTGGTGGGACTTCATCATATGGAAGCTCAGGTAGTCATACATCTAGCAAAAAG
GATAACGATGGCAATGAATCTCCAAGGAAGCTAGATTTAGATGGTTTGACTCCTTTTGAGAAGA
ATTTTTATGTCGAGTCTCCCGCTGTGGCGGCTATGACAGACACAGAAGTAGAGGAATATCGAAA
GCTAAGGGAAATTACTGTTGAAGGCAAAGATATTCCAAAACCTGTCAAGAGTTTTCGTGATGTT
GGCTTTCCTGGTAAACTCTTGAATTTGGCAATCATGTAGAGCTTGTGATTAGTTTCACTTACAT
GTCTTAGATGTATGATGTAGCATATATGCCTGTTTTATTTTTGGATATACCTACTGATATAGTT
TCCTGATTGGCTCAGATTATGTTTTGGAAGAGGTTAAGAAGGCTGGTTTTACTGAACCTACGCC
TATACAATCTCAGGGGTGGCCAATGGCTATGAAGGGACGTGATCTTATCGGCATTGCTGAAACT
GGTTCTGGAAAGACTCTTTCTTACTTACTACCTGCTATTGTCCATGTTAATGCCCAACCAATGT
TAGGTAATGCTTGATTTCTGCTCCTGGAGTTCTTTTTTTTTTTCGTTCTTGTTTGATGGAAGTT
GTAAAAGGCTGTACTGATTGAAATAAAATTTCCCAGCTCATGGTGACGGCCCAATCGTCTTGGT
TCTTGCTCCCACTCGTGAACTGGCTGTGCAGATACAGCAAGAGGCATCTAAATTTGGTTCATCC
TCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCC
AGAAAGGTAAATTGCTTTAGTTCAGTGCCTTTCACGACATTTCTGGAACTATTAGTTTTTCTTA
ATTTTTTGTTGATCATTCTGATTGTGATTGTTGGCCTGTGGATATAGGTGTGGAGATCGTTATA
GCTACTCCTGGGAGGTTAATAGACATGATGGAGTCGAACAACACAAACCTACGAAGGGTTACTT
ATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAAT
TGTTTCACATGTTCGTTTACTTACTCCTGTCTTCGTCATATATATGTGTATGCTAGTTGCTTTG
TCTATAACCTTTCTTTTTAAACCTGTGCAGATTCGGCCAGACCGTCAAACTTTGTACTGGAGTG
CCACTTGGCCTAAGGAGGTGGAACAACTATCGAAGAAGTTTCTTTATAACCCATACAAAGTAAG
AGAGTAAGAGACATCTCTCTAACGTTTCTCACAGTGGTTTAGTTGTCAACAAAAACTTATCAGG
CTTCTTTGGTCTTAATTGCAGGTGATAATAGGATCTTCTGATTTGAAAGCTAACCGTGCAATTC
GTCAAATTGTTGATGTCATTTCCGAAAGCCAAAAGTATAACAAGTACGTCTCCTTACCTACTAT
GCTCTCCCTGCTTCTTGTCTCATTTCACTTGTCATGGAATTTGTGGTGAATCGAAACTATTTGT
TGCAATTTTACAGGTTGGTGAAACTGCTTGAGGACATAATGGATGGAAGCAGAATTCTTGTCTT
CCTCGATACAAAAAAGGGCTGTGACCAAATCACTCGTCAGCTTCGCATGGATGGTTGGCCTGCT
TTGTCAATACATGGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAG
GCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGGTACTAAATCTTTTTC
TCATCTGCGTGCAAACATCAACTCTCTTAACCATGGTGACAAGCTAACAACAGTTCTTTTTGTT
TTGAACAGACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCACTGGAGGAT
TATGTTCACAGGATTGGACGAACAGGTAGAGCCGGGGCTAAAGGAACAGCTTACACTTTCTTCA
CAGTTGCAAATGCGAGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGGACAGAAAGT
GAGTCCCGAATTGGCTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAG
						
					

			
		

Sequences
Splice junction sequence	AGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGGACAGAAAGTGAGTCCCGAATTGG CTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAGtgactcagggtttggtgggacttcatca tatggaagctcaggtagtcatacatctagcaaaaaggataacgatggcaatgaatctccaagga agctagat
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: 1403 Transcript exons: 20574880-20575145,20575279-20575458,20575556-20575717,20 575823-20575977,20576062-20576154,20576245-20576330,2057 6429-20576655,20576744-20576977 TGACTCAGGGTTTGGTGGGACTTCATCATATGGAAGCTCAGGTAGTCATACATCTAGCAAAAAG GATAACGATGGCAATGAATCTCCAAGGAAGCTAGATTTAGATGGTTTGACTCCTTTTGAGAAGA ATTTTTATGTCGAGTCTCCCGCTGTGGCGGCTATGACAGACACAGAAGTAGAGGAATATCGAAA GCTAAGGGAAATTACTGTTGAAGGCAAAGATATTCCAAAACCTGTCAAGAGTTTTCGTGATGTT GGCTTTCCTGATTATGTTTTGGAAGAGGTTAAGAAGGCTGGTTTTACTGAACCTACGCCTATAC AATCTCAGGGGTGGCCAATGGCTATGAAGGGACGTGATCTTATCGGCATTGCTGAAACTGGTTC TGGAAAGACTCTTTCTTACTTACTACCTGCTATTGTCCATGTTAATGCCCAACCAATGTTAGCT CATGGTGACGGCCCAATCGTCTTGGTTCTTGCTCCCACTCGTGAACTGGCTGTGCAGATACAGC AAGAGGCATCTAAATTTGGTTCATCCTCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCC AAAAGGGCCTCAAGTGCGTGATCTCCAGAAAGGTGTGGAGATCGTTATAGCTACTCCTGGGAGG TTAATAGACATGATGGAGTCGAACAACACAAACCTACGAAGGGTTACTTATCTTGTTTTGGATG AGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAATTGTTTCACATATTCG GCCAGACCGTCAAACTTTGTACTGGAGTGCCACTTGGCCTAAGGAGGTGGAACAACTATCGAAG AAGTTTCTTTATAACCCATACAAAGTGATAATAGGATCTTCTGATTTGAAAGCTAACCGTGCAA TTCGTCAAATTGTTGATGTCATTTCCGAAAGCCAAAAGTATAACAAGTTGGTGAAACTGCTTGA GGACATAATGGATGGAAGCAGAATTCTTGTCTTCCTCGATACAAAAAAGGGCTGTGACCAAATC ACTCGTCAGCTTCGCATGGATGGTTGGCCTGCTTTGTCAATACATGGAGATAAAAGTCAAGCGG AAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGT TGCAGCTCGTGGATTAGACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCA CTGGAGGATTATGTTCACAGGATTGGACGAACAGGTAGAGCCGGGGCTAAAGGAACAGCTTACA CTTTCTTCACAGTTGCAAATGCGAGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGG ACAGAAAGTGAGTCCCGAATTGGCTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAG
Genomic sequence	TGACTCAGGGTTTGGTGGGACTTCATCATATGGAAGCTCAGGTAGTCATACATCTAGCAAAAAG GATAACGATGGCAATGAATCTCCAAGGAAGCTAGATTTAGATGGTTTGACTCCTTTTGAGAAGA ATTTTTATGTCGAGTCTCCCGCTGTGGCGGCTATGACAGACACAGAAGTAGAGGAATATCGAAA GCTAAGGGAAATTACTGTTGAAGGCAAAGATATTCCAAAACCTGTCAAGAGTTTTCGTGATGTT GGCTTTCCTGGTAAACTCTTGAATTTGGCAATCATGTAGAGCTTGTGATTAGTTTCACTTACAT GTCTTAGATGTATGATGTAGCATATATGCCTGTTTTATTTTTGGATATACCTACTGATATAGTT TCCTGATTGGCTCAGATTATGTTTTGGAAGAGGTTAAGAAGGCTGGTTTTACTGAACCTACGCC TATACAATCTCAGGGGTGGCCAATGGCTATGAAGGGACGTGATCTTATCGGCATTGCTGAAACT GGTTCTGGAAAGACTCTTTCTTACTTACTACCTGCTATTGTCCATGTTAATGCCCAACCAATGT TAGGTAATGCTTGATTTCTGCTCCTGGAGTTCTTTTTTTTTTTCGTTCTTGTTTGATGGAAGTT GTAAAAGGCTGTACTGATTGAAATAAAATTTCCCAGCTCATGGTGACGGCCCAATCGTCTTGGT TCTTGCTCCCACTCGTGAACTGGCTGTGCAGATACAGCAAGAGGCATCTAAATTTGGTTCATCC TCAAAAATTAAGACCACTTGCATTTATGGTGGGGTTCCAAAAGGGCCTCAAGTGCGTGATCTCC AGAAAGGTAAATTGCTTTAGTTCAGTGCCTTTCACGACATTTCTGGAACTATTAGTTTTTCTTA ATTTTTTGTTGATCATTCTGATTGTGATTGTTGGCCTGTGGATATAGGTGTGGAGATCGTTATA GCTACTCCTGGGAGGTTAATAGACATGATGGAGTCGAACAACACAAACCTACGAAGGGTTACTT ATCTTGTTTTGGATGAGGCTGATCGAATGCTTGATATGGGGTTTGACCCTCAGATCCGGAAAAT TGTTTCACATGTTCGTTTACTTACTCCTGTCTTCGTCATATATATGTGTATGCTAGTTGCTTTG TCTATAACCTTTCTTTTTAAACCTGTGCAGATTCGGCCAGACCGTCAAACTTTGTACTGGAGTG CCACTTGGCCTAAGGAGGTGGAACAACTATCGAAGAAGTTTCTTTATAACCCATACAAAGTAAG AGAGTAAGAGACATCTCTCTAACGTTTCTCACAGTGGTTTAGTTGTCAACAAAAACTTATCAGG CTTCTTTGGTCTTAATTGCAGGTGATAATAGGATCTTCTGATTTGAAAGCTAACCGTGCAATTC GTCAAATTGTTGATGTCATTTCCGAAAGCCAAAAGTATAACAAGTACGTCTCCTTACCTACTAT GCTCTCCCTGCTTCTTGTCTCATTTCACTTGTCATGGAATTTGTGGTGAATCGAAACTATTTGT TGCAATTTTACAGGTTGGTGAAACTGCTTGAGGACATAATGGATGGAAGCAGAATTCTTGTCTT CCTCGATACAAAAAAGGGCTGTGACCAAATCACTCGTCAGCTTCGCATGGATGGTTGGCCTGCT TTGTCAATACATGGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAG GCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGGTACTAAATCTTTTTC TCATCTGCGTGCAAACATCAACTCTCTTAACCATGGTGACAAGCTAACAACAGTTCTTTTTGTT TTGAACAGACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCACTGGAGGAT TATGTTCACAGGATTGGACGAACAGGTAGAGCCGGGGCTAAAGGAACAGCTTACACTTTCTTCA CAGTTGCAAATGCGAGATTCGCCAAGGAACTTACCAACATACTACAAGAAGCTGGACAGAAAGT GAGTCCCGAATTGGCTTCAATGGGTCGCAGTACCGCTCCTCCTCCTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.31024993

Conservation Information
Conserved circRNAs	NA
PMCS	0.31024993

			
						 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 AT1G55150_circ_g.1

Address

Any questions?

Supported by