Plant Circular RNA Database

Detail information of AT1G73390_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G73390_circ_g.3
					
						ID in PlantcircBase
						ath_circ_009970
					
						Alias
						1:27592400-27594166
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 27592400-27594166  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G73390						
					
						Parent gene annotation
						
							At1g73390
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G73390_circ_g.1 AT1G73390_circ_g.2 AT1G73390_circ_g.4 AT1G73390_circ_g.5 AT1G73390_circ_g.6 AT1G73390_circ_g.7 AT1G73390_circ_g.8 AT1G73390_circ_g.9 AT1G73390_circ_g.10 AT1G73390_circ_g.11 						
					
						Support reads
						1/1/1
					
						Tissues
						leaf;flower
					
						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
						AT1G73390.1:7
AT1G73390.2:7
AT1G73390.4:7
AT1G73390.5:7
AT1G73390.6:7
AT1G73390.3:7
AT1G73390.7:7

General Information
CircRNA Name	AT1G73390_circ_g.3
ID in PlantcircBase	ath_circ_009970
Alias	1:27592400-27594166
Organism	Arabidpsis thaliana
Position	chr1: 27592400-27594166 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G73390
Parent gene annotation	At1g73390
Parent gene strand	-
Alternative splicing	AT1G73390_circ_g.1 AT1G73390_circ_g.2 AT1G73390_circ_g.4 AT1G73390_circ_g.5 AT1G73390_circ_g.6 AT1G73390_circ_g.7 AT1G73390_circ_g.8 AT1G73390_circ_g.9 AT1G73390_circ_g.10 AT1G73390_circ_g.11
Support reads	1/1/1
Tissues	leaf;flower
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	AT1G73390.1:7 AT1G73390.2:7 AT1G73390.4:7 AT1G73390.5:7 AT1G73390.6:7 AT1G73390.3:7 AT1G73390.7:7

			
						 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  
						
							CATATACTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGGCCT
TGATGCAAAGCATCCCATTTCTAAAGCTTAACGAAActgctgccagtatttcaccatttcacat
gaaagtcttcgcttcacggcaagagtggcttttgcactatcaatcgccatcccaagttggatat
caacaccc

									
								

					

						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: 798
Transcript exons: 27592400-27592498,27592690-27592756,27592857-27592953,27
593350-27593485,27593605-27593663,27593745-27593819,2759
3902-27594166
CTGCTGCCAGTATTTCACCATTTCACATGAAAGTCTTCGCTTCACGGCAAGAGTGGCTTTTGCA
CTATCAATCGCCATCCCAAGTTGGATATCAACACCCTGGCCTAATGCTTGCAAGCAAAGTGCAC
GTAAAGCTCCTTCTGCTAGGTCAATTGGTAAACTTCTCCTCTGCTCGGTTGAAAAATGAGGAAG
AACATGCTTCACAGCACAGTCCAGGTATCCAGCTGCTTTTAAGAAGATATCGATTGAAGCTCGC
CTATTTTCTTCTGATATTTTTGGATGATAGCCATCACTGGAACCTCTAGGAAGAAGCAGTAAAT
TGGCTTGTGACATTTGTAACATTGCCATTAGATGCAAAACCGACAATATTTCATACCAAACATT
TGACATGGCTGTTTCCTCTTCTTCATCTTCCTGATTTACCCAATTAAACTGTACTTTGAATTGT
AAATGGCTACCATCTTTAGTTAATCCTAAGAGAACCGGTATATAATCTTCCAAAGCGTGATGGA
GATCTGCGAGCGTAGAACCTCCATGCTGTGTCTTCCTCCTGGTTCTTGTTATAGTTGGTCCTTC
TTGATTTGCCATCACAACTATTCTCGTTCTTAAAGCTGTCAAGCGCTCCACTAGAGTCTTTGGC
AATTGATCACCCAGTGACTGAGAAAACTCCACGGGCTTAGGTATCCTTAAACCAGGTACATATA
CTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGGCCTTGATGC
AAAGCATCCCATTTCTAAAGCTTAACGAAA
						
					

						Genomic sequence
						
							CTGCTGCCAGTATTTCACCATTTCACATGAAAGTCTTCGCTTCACGGCAAGAGTGGCTTTTGCA
CTATCAATCGCCATCCCAAGTTGGATATCAACACCCTAAATTAGAAAATTTATAACTTAAATAG
AAGACTATAAATGTCTATTAAAATACTCTAACCATCACTACTTCTAACTAGGCTGAGTTTCTAA
GTAGTTGAACATGATGACGATATTCACAAATAAACTAGGCAACACATGTAGCAAATCATAATTA
GTTAATATATCCCAAACATTGAAAGTGATTCTACCTGGCCTAATGCTTGCAAGCAAAGTGCACG
TAAAGCTCCTTCTGCTAGGTCAATTGGTAAACTTCTCCTGTGGAAAAGGCAAAGAAAAACAACC
GTCGTGTCAGTAGAGTCGATCAGAGCTATTAAAAACTGCAATGGTTGACATAAGAAAACTGTCA
TATATGAACCTCTGCTCGGTTGAAAAATGAGGAAGAACATGCTTCACAGCACAGTCCAGGTATC
CAGCTGCTTTTAAGAAGATATCGATTGAAGCTCGCCTATTTTCTAGAAAAGATTGAAACAAGCA
TATCGTTAAGACTGAAGGACATAACCATTACATCTTACAGTTATACTAATTGAGACAGTGGAAA
ACATGGACATTACATTCCTCCTACTTTCTACCTGCCTGCCTTATCCATCCATCTAGATAATCCT
AGAAACATGGATCTTTCTATAAACTAGCTATCAATTGCCTTCTTAAGAGCATCAAAAGGAACAT
TCTAATCTATTGTTGGATTACTAAAGAGGGGTCAATACATCTGACAGTTCCATACATGCTAGTT
TTTAGAGAAGTGGTGCTTATGAAATTTCAAGAAATTGTGAAGAAAAAAAAAAAAAACTAGCATG
TATGGTACTTCTCTTACGAAACTGAAGAAGTGTGAGCAATTTGGCAGGTCTTACCTTCTGATAT
TTTTGGATGATAGCCATCACTGGAACCTCTAGGAAGAAGCAGTAAATTGGCTTGTGACATTTGT
AACATTGCCATTAGATGCAAAACCGACAATATTTCATACCAAACATTTGACATGGCTGTTTCCT
GGTAGATGTAAATAATCTTGTCATATACTCACAACCACTAATGTAAAAGTCTAAATCTTAAAGT
GAAGGAAAGAGCAAAACAGCACAATAAGGGATAAACAGCTTTGACTACCGCACCTCTTCTTCAT
CTTCCTGATTTACCCAATTAAACTGTACTTTGAATTGTAAATGGCTACCTGAACATATAGAACA
ATATATGTTAGGATATCTACTACCAAGCAAATCTCGATTATTATAGCACATACATAGTATATTA
CCATCTTTAGTTAATCCTAAGAGAACCGGTATATAATCTTCCAAAGCGTGATGGAGATCTGCGA
GCGTAGAACCTCCTGCAAGAAACCATTCCGTTAAGTTAGAAGGGGGAAAGCAGGGCAAAGAGAA
ACAAGAAACAGACAAGATATTCTTCTATACCATGCTGTGTCTTCCTCCTGGTTCTTGTTATAGT
TGGTCCTTCTTGATTTGCCATCACAACTATTCTCGTTCTTAAAGCTGTCAAGCGCTCCACTAGA
GTCTTTGGCAATTGATCACCCAGTGACTGAGAAAACTCCACGGGCTTAGGTATCCTTAAACCAG
GTACATATACTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGG
CCTTGATGCAAAGCATCCCATTTCTAAAGCTTAACGAAA
						
					

			
		

Sequences
Splice junction sequence	CATATACTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGGCCT TGATGCAAAGCATCCCATTTCTAAAGCTTAACGAAActgctgccagtatttcaccatttcacat gaaagtcttcgcttcacggcaagagtggcttttgcactatcaatcgccatcccaagttggatat caacaccc
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: 798 Transcript exons: 27592400-27592498,27592690-27592756,27592857-27592953,27 593350-27593485,27593605-27593663,27593745-27593819,2759 3902-27594166 CTGCTGCCAGTATTTCACCATTTCACATGAAAGTCTTCGCTTCACGGCAAGAGTGGCTTTTGCA CTATCAATCGCCATCCCAAGTTGGATATCAACACCCTGGCCTAATGCTTGCAAGCAAAGTGCAC GTAAAGCTCCTTCTGCTAGGTCAATTGGTAAACTTCTCCTCTGCTCGGTTGAAAAATGAGGAAG AACATGCTTCACAGCACAGTCCAGGTATCCAGCTGCTTTTAAGAAGATATCGATTGAAGCTCGC CTATTTTCTTCTGATATTTTTGGATGATAGCCATCACTGGAACCTCTAGGAAGAAGCAGTAAAT TGGCTTGTGACATTTGTAACATTGCCATTAGATGCAAAACCGACAATATTTCATACCAAACATT TGACATGGCTGTTTCCTCTTCTTCATCTTCCTGATTTACCCAATTAAACTGTACTTTGAATTGT AAATGGCTACCATCTTTAGTTAATCCTAAGAGAACCGGTATATAATCTTCCAAAGCGTGATGGA GATCTGCGAGCGTAGAACCTCCATGCTGTGTCTTCCTCCTGGTTCTTGTTATAGTTGGTCCTTC TTGATTTGCCATCACAACTATTCTCGTTCTTAAAGCTGTCAAGCGCTCCACTAGAGTCTTTGGC AATTGATCACCCAGTGACTGAGAAAACTCCACGGGCTTAGGTATCCTTAAACCAGGTACATATA CTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGGCCTTGATGC AAAGCATCCCATTTCTAAAGCTTAACGAAA
Genomic sequence	CTGCTGCCAGTATTTCACCATTTCACATGAAAGTCTTCGCTTCACGGCAAGAGTGGCTTTTGCA CTATCAATCGCCATCCCAAGTTGGATATCAACACCCTAAATTAGAAAATTTATAACTTAAATAG AAGACTATAAATGTCTATTAAAATACTCTAACCATCACTACTTCTAACTAGGCTGAGTTTCTAA GTAGTTGAACATGATGACGATATTCACAAATAAACTAGGCAACACATGTAGCAAATCATAATTA GTTAATATATCCCAAACATTGAAAGTGATTCTACCTGGCCTAATGCTTGCAAGCAAAGTGCACG TAAAGCTCCTTCTGCTAGGTCAATTGGTAAACTTCTCCTGTGGAAAAGGCAAAGAAAAACAACC GTCGTGTCAGTAGAGTCGATCAGAGCTATTAAAAACTGCAATGGTTGACATAAGAAAACTGTCA TATATGAACCTCTGCTCGGTTGAAAAATGAGGAAGAACATGCTTCACAGCACAGTCCAGGTATC CAGCTGCTTTTAAGAAGATATCGATTGAAGCTCGCCTATTTTCTAGAAAAGATTGAAACAAGCA TATCGTTAAGACTGAAGGACATAACCATTACATCTTACAGTTATACTAATTGAGACAGTGGAAA ACATGGACATTACATTCCTCCTACTTTCTACCTGCCTGCCTTATCCATCCATCTAGATAATCCT AGAAACATGGATCTTTCTATAAACTAGCTATCAATTGCCTTCTTAAGAGCATCAAAAGGAACAT TCTAATCTATTGTTGGATTACTAAAGAGGGGTCAATACATCTGACAGTTCCATACATGCTAGTT TTTAGAGAAGTGGTGCTTATGAAATTTCAAGAAATTGTGAAGAAAAAAAAAAAAAACTAGCATG TATGGTACTTCTCTTACGAAACTGAAGAAGTGTGAGCAATTTGGCAGGTCTTACCTTCTGATAT TTTTGGATGATAGCCATCACTGGAACCTCTAGGAAGAAGCAGTAAATTGGCTTGTGACATTTGT AACATTGCCATTAGATGCAAAACCGACAATATTTCATACCAAACATTTGACATGGCTGTTTCCT GGTAGATGTAAATAATCTTGTCATATACTCACAACCACTAATGTAAAAGTCTAAATCTTAAAGT GAAGGAAAGAGCAAAACAGCACAATAAGGGATAAACAGCTTTGACTACCGCACCTCTTCTTCAT CTTCCTGATTTACCCAATTAAACTGTACTTTGAATTGTAAATGGCTACCTGAACATATAGAACA ATATATGTTAGGATATCTACTACCAAGCAAATCTCGATTATTATAGCACATACATAGTATATTA CCATCTTTAGTTAATCCTAAGAGAACCGGTATATAATCTTCCAAAGCGTGATGGAGATCTGCGA GCGTAGAACCTCCTGCAAGAAACCATTCCGTTAAGTTAGAAGGGGGAAAGCAGGGCAAAGAGAA ACAAGAAACAGACAAGATATTCTTCTATACCATGCTGTGTCTTCCTCCTGGTTCTTGTTATAGT TGGTCCTTCTTGATTTGCCATCACAACTATTCTCGTTCTTAAAGCTGTCAAGCGCTCCACTAGA GTCTTTGGCAATTGATCACCCAGTGACTGAGAAAACTCCACGGGCTTAGGTATCCTTAAACCAG GTACATATACTGAAACATCTCCGATGCTCGTTGGCTTTCTTCTGTTTCCACCAGTATCATTCGG CCTTGATGCAAAGCATCCCATTTCTAAAGCTTAACGAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.197057304

Conservation Information
Conserved circRNAs	NA
PMCS	0.197057304

			
						 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 AT1G73390_circ_g.3

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