Plant Circular RNA Database

Detail information of AT1G75850_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT1G75850_circ_g.6
					
						ID in PlantcircBase
						ath_circ_010363
					
						Alias
						1:28481649-28483519
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 28481649-28483519  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G75850						
					
						Parent gene annotation
						
							Vacuolar protein sorting-associated protein 35
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G75850_circ_g.7 AT1G75850_circ_g.8 AT1G75850_circ_g.9 AT1G75850_circ_g.10 						
					
						Support reads
						2/1
					
						Tissues
						seedling;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
						AT1G75850.1:8
AT1G75850.2:5

General Information
CircRNA Name	AT1G75850_circ_g.6
ID in PlantcircBase	ath_circ_010363
Alias	1:28481649-28483519
Organism	Arabidpsis thaliana
Position	chr1: 28481649-28483519 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G75850
Parent gene annotation	Vacuolar protein sorting-associated protein 35
Parent gene strand	-
Alternative splicing	AT1G75850_circ_g.7 AT1G75850_circ_g.8 AT1G75850_circ_g.9 AT1G75850_circ_g.10
Support reads	2/1
Tissues	seedling;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	AT1G75850.1:8 AT1G75850.2:5

			
						 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  
						
							TGTTGAACAAGTTCATACAAATCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAA
TCTCCAGCTGCCTCAATTGATCGAAAGCTCTCATATctttccaattgcattgctcaatttagca
aaagcttccacttgcaaaaattcgtgtaacacctgctcagaagttaagaataagaagacatcta
gctaacaa

									
								

					

						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: 803
Transcript exons: 28481649-28481708,28481791-28481865,28482264-28482386,28
482479-28482568,28482653-28482709,28482892-28482979,2848
3057-28483242,28483396-28483519
CTTTCCAATTGCATTGCTCAATTTAGCAAAAGCTTCCACTTGCAAAAATTCGTGTAACACATCT
GGACTTGAGGCAGCATAGTTTGATAACCGGTCCATTAGTTGGGTTAACACTATCTTCGTGTCAA
CAGTTGGCATCAGTTGGGTACAAGCAGCCAATAAGGTCTCAAGAGTCTGCAAATGGTACTCATC
AGGAAAGACTTGAATTATGCACTCCATCAGATAATACTGAGCCAACTTATCTTTACAGTTGACG
ACCTGCTCTAAGACCCTAGGAAGAACAGTCTCTTTGTACATCTCAAGGTCAACACCTTCTATCT
GTCCTAGAACATGCAGATTTTTTCCAACAAGATCACGAAGTTCGTTCCTCTCTTTCTCCTGCTT
TTCTCGAACTGTTCCTGGTCCCTGATGCTGTATTCGAACCCAAAGCTTATTCATCTCTGTGAAA
TTTTGTAGCACAAACTCCACAGCATCCATCACAGTATTTGCATCTCCTTCGTAGTCTGAGCCAA
TCTCAGGTAACTTATCCCTGCTCACTTGAGCGAGATAACTCCTCAAAAAGAGGCCACGAATAGG
ATGTTGAACACCTCGACACATTTCCACAAGATCCTTAAGTACATCCTTCGAAGGAGCCTGCTTA
CTTTTGATATAAACAGACCCGACCGTACATAGCAGATACATTCTGGGCAATATGTTGCCGGCAT
GTTGAACAAGTTCATACAAATCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAAT
CTCCAGCTGCCTCAATTGATCGAAAGCTCTCATAT
						
					

						Genomic sequence
						
							CTTTCCAATTGCATTGCTCAATTTAGCAAAAGCTTCCACTTGCAAAAATTCGTGTAACACCTGC
TCAGAAGTTAAGAATAAGAAGACATCTAGCTAACAAACAAAAATAAAAAGGAACGATGATAGCT
CAATGGGAACTTACATCTGGACTTGAGGCAGCATAGTTTGATAACCGGTCCATTAGTTGGGTTA
ACACTATCTTCGTGTCAACAGTTGGCTGAGAAATTATTTCTTAAGGTCAGAGAGGAAGGAAAAA
TGTCAAATAACTCTTGAGTGAGAAAAGTGCTGATAGTGAATTCAATAGAAAAGTGCTCTGTTGA
GGATTCCCTGCTCAGAGTTTAGTAATTCCAGTCAAACTGTAAGAGATCAGGGACCTCTTTCAAA
AACTTTTAATTGGTGAGCCAAAGCCCTAGTCACCAGGAAATAAACAAAAAAAAAACTCGAAATC
CTAAAAATCAACAAGAATAGGGAATACAGACAGTTCAGATAGATCCTTTTAGGAGATAATGGCA
GCATAAGAAGAGTTAATCAGAAAGCACCAAACAAAGCATTGAGATAACTAGAATTGCATTGGAG
AGTAGAAAAGAGAAAAATATCGATTGCTAGCCTACCCACCATCAGTTGGGTACAAGCAGCCAAT
AAGGTCTCAAGAGTCTGCAAATGGTACTCATCAGGAAAGACTTGAATTATGCACTCCATCAGAT
AATACTGAGCCAACTTATCTTTACAGTTGACGACCTGTTCAAGGTTTTCAGATTTAGCAGATTA
TACATGAATTGAAACCCTATAAGAAAGGACATGGTAATAGATGCAAAAATGAGCTGCCGAACCT
GCTCTAAGACCCTAGGAAGAACAGTCTCTTTGTACATCTCAAGGTCAACACCTTCTATCTGTCC
TAGAACATGCAGATTTTTTCCAACCTGAGAGGAAAACATTAAATACAACTTAGTGGGCAGTACA
TAGCAAAAATAGGATACTAATTCAAGTAGTGGTATCGATGTTACAAGATCACGAAGTTCGTTCC
TCTCTTTCTCCTGCTTTTCTCGAACTGTTCCTGGTCCCTGCAGTCCAAGGAACACCTCAGCTCA
GGTTCACCAATATCAATGATTCACAAGCACCACACAACCTGCATGACCAAAAGCATGCTCTTCA
TCGTTCATTTATGCTTCAGTCAGAGGCATGCAAGTGCAGAGGTGCTATGCGTATCTAAATACCA
TCAACTCTTCACAGATCGAAAATTCACCTGATGCTGTATTCGAACCCAAAGCTTATTCATCTCT
GTGAAATTTTGTAGCACAAACTCCACAGCATCCATCACAGTATTTGCATCTCTACAAGAAGATC
GCAAGGCGAGTAAACAAACAAACAGCTAACCAAATCTCATGAAAAAACGAAAGAGCAAACCCAC
CCTTCGTAGTCTGAGCCAATCTCAGGTAACTTATCCCTGCTCACTTGAGCGAGATAACTCCTCA
AAAAGAGGCCACGAATAGGATGTTGAACACCTCGACACATTTCCACAAGATCCTTAAGTACATC
CTTCGAAGGAGCCTGCTTACTTTTGATATAAACAGACCCGACCGTACATAGCAGATACCTGGTA
AATCAATGCAGCCCAAGAGAAACATTAATATAGGAGGAGATTGCCATTTTCTAGTCTAATCTAG
GCTATATAGCTAGAGGATTGAGAGTATTAGATCTTTATCAGATCAAGAGGAATAGAAACTAGCT
CAATGATGAATCAGCTTACATTCTGGGCAATATGTTGCCGGCATGTTGAACAAGTTCATACAAA
TCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAATCTCCAGCTGCCTCAATTGAT
CGAAAGCTCTCATAT
						
					

			
		

Sequences
Splice junction sequence	TGTTGAACAAGTTCATACAAATCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAA TCTCCAGCTGCCTCAATTGATCGAAAGCTCTCATATctttccaattgcattgctcaatttagca aaagcttccacttgcaaaaattcgtgtaacacctgctcagaagttaagaataagaagacatcta gctaacaa
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: 803 Transcript exons: 28481649-28481708,28481791-28481865,28482264-28482386,28 482479-28482568,28482653-28482709,28482892-28482979,2848 3057-28483242,28483396-28483519 CTTTCCAATTGCATTGCTCAATTTAGCAAAAGCTTCCACTTGCAAAAATTCGTGTAACACATCT GGACTTGAGGCAGCATAGTTTGATAACCGGTCCATTAGTTGGGTTAACACTATCTTCGTGTCAA CAGTTGGCATCAGTTGGGTACAAGCAGCCAATAAGGTCTCAAGAGTCTGCAAATGGTACTCATC AGGAAAGACTTGAATTATGCACTCCATCAGATAATACTGAGCCAACTTATCTTTACAGTTGACG ACCTGCTCTAAGACCCTAGGAAGAACAGTCTCTTTGTACATCTCAAGGTCAACACCTTCTATCT GTCCTAGAACATGCAGATTTTTTCCAACAAGATCACGAAGTTCGTTCCTCTCTTTCTCCTGCTT TTCTCGAACTGTTCCTGGTCCCTGATGCTGTATTCGAACCCAAAGCTTATTCATCTCTGTGAAA TTTTGTAGCACAAACTCCACAGCATCCATCACAGTATTTGCATCTCCTTCGTAGTCTGAGCCAA TCTCAGGTAACTTATCCCTGCTCACTTGAGCGAGATAACTCCTCAAAAAGAGGCCACGAATAGG ATGTTGAACACCTCGACACATTTCCACAAGATCCTTAAGTACATCCTTCGAAGGAGCCTGCTTA CTTTTGATATAAACAGACCCGACCGTACATAGCAGATACATTCTGGGCAATATGTTGCCGGCAT GTTGAACAAGTTCATACAAATCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAAT CTCCAGCTGCCTCAATTGATCGAAAGCTCTCATAT
Genomic sequence	CTTTCCAATTGCATTGCTCAATTTAGCAAAAGCTTCCACTTGCAAAAATTCGTGTAACACCTGC TCAGAAGTTAAGAATAAGAAGACATCTAGCTAACAAACAAAAATAAAAAGGAACGATGATAGCT CAATGGGAACTTACATCTGGACTTGAGGCAGCATAGTTTGATAACCGGTCCATTAGTTGGGTTA ACACTATCTTCGTGTCAACAGTTGGCTGAGAAATTATTTCTTAAGGTCAGAGAGGAAGGAAAAA TGTCAAATAACTCTTGAGTGAGAAAAGTGCTGATAGTGAATTCAATAGAAAAGTGCTCTGTTGA GGATTCCCTGCTCAGAGTTTAGTAATTCCAGTCAAACTGTAAGAGATCAGGGACCTCTTTCAAA AACTTTTAATTGGTGAGCCAAAGCCCTAGTCACCAGGAAATAAACAAAAAAAAAACTCGAAATC CTAAAAATCAACAAGAATAGGGAATACAGACAGTTCAGATAGATCCTTTTAGGAGATAATGGCA GCATAAGAAGAGTTAATCAGAAAGCACCAAACAAAGCATTGAGATAACTAGAATTGCATTGGAG AGTAGAAAAGAGAAAAATATCGATTGCTAGCCTACCCACCATCAGTTGGGTACAAGCAGCCAAT AAGGTCTCAAGAGTCTGCAAATGGTACTCATCAGGAAAGACTTGAATTATGCACTCCATCAGAT AATACTGAGCCAACTTATCTTTACAGTTGACGACCTGTTCAAGGTTTTCAGATTTAGCAGATTA TACATGAATTGAAACCCTATAAGAAAGGACATGGTAATAGATGCAAAAATGAGCTGCCGAACCT GCTCTAAGACCCTAGGAAGAACAGTCTCTTTGTACATCTCAAGGTCAACACCTTCTATCTGTCC TAGAACATGCAGATTTTTTCCAACCTGAGAGGAAAACATTAAATACAACTTAGTGGGCAGTACA TAGCAAAAATAGGATACTAATTCAAGTAGTGGTATCGATGTTACAAGATCACGAAGTTCGTTCC TCTCTTTCTCCTGCTTTTCTCGAACTGTTCCTGGTCCCTGCAGTCCAAGGAACACCTCAGCTCA GGTTCACCAATATCAATGATTCACAAGCACCACACAACCTGCATGACCAAAAGCATGCTCTTCA TCGTTCATTTATGCTTCAGTCAGAGGCATGCAAGTGCAGAGGTGCTATGCGTATCTAAATACCA TCAACTCTTCACAGATCGAAAATTCACCTGATGCTGTATTCGAACCCAAAGCTTATTCATCTCT GTGAAATTTTGTAGCACAAACTCCACAGCATCCATCACAGTATTTGCATCTCTACAAGAAGATC GCAAGGCGAGTAAACAAACAAACAGCTAACCAAATCTCATGAAAAAACGAAAGAGCAAACCCAC CCTTCGTAGTCTGAGCCAATCTCAGGTAACTTATCCCTGCTCACTTGAGCGAGATAACTCCTCA AAAAGAGGCCACGAATAGGATGTTGAACACCTCGACACATTTCCACAAGATCCTTAAGTACATC CTTCGAAGGAGCCTGCTTACTTTTGATATAAACAGACCCGACCGTACATAGCAGATACCTGGTA AATCAATGCAGCCCAAGAGAAACATTAATATAGGAGGAGATTGCCATTTTCTAGTCTAATCTAG GCTATATAGCTAGAGGATTGAGAGTATTAGATCTTTATCAGATCAAGAGGAATAGAAACTAGCT CAATGATGAATCAGCTTACATTCTGGGCAATATGTTGCCGGCATGTTGAACAAGTTCATACAAA TCAACAACAGGTAATCCATGCCTACTCTCATCCTTAAAGAAAATCTCCAGCTGCCTCAATTGAT CGAAAGCTCTCATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217317124

Conservation Information
Conserved circRNAs	NA
PMCS	0.217317124

			
						 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 AT1G75850_circ_g.6

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