Plant Circular RNA Database

Detail information of AT1G54100_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT1G54100_circ_g.7
					
						ID in PlantcircBase
						ath_circ_007265
					
						Alias
						1:20196484-20198855
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 20196484-20198855  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G54100						
					
						Parent gene annotation
						
							ALDH7B4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G54100_circ_g.1 AT1G54100_circ_g.2 AT1G54100_circ_g.3 AT1G54100_circ_g.4 AT1G54100_circ_g.5 AT1G54100_circ_g.6 AT1G54100_circ_g.8 AT1G54100_circ_g.9 AT1G54100_circ_g.10 AT1G54100_circ_g.11 AT1G54100_circ_g.12 AT1G54100_circ_g.13 AT1G54100_circ_g.14 AT1G54100_circ_g.15 AT1G54100_circ_g.16 AT1G54100_circ_g.17 AT1G54100_circ_g.18 AT1G54100_circ_g.19 						
					
						Support reads
						2/1
					
						Tissues
						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
						AT1G54100.1:9
AT1G54100.2:9

General Information
CircRNA Name	AT1G54100_circ_g.7
ID in PlantcircBase	ath_circ_007265
Alias	1:20196484-20198855
Organism	Arabidpsis thaliana
Position	chr1: 20196484-20198855 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G54100
Parent gene annotation	ALDH7B4
Parent gene strand	-
Alternative splicing	AT1G54100_circ_g.1 AT1G54100_circ_g.2 AT1G54100_circ_g.3 AT1G54100_circ_g.4 AT1G54100_circ_g.5 AT1G54100_circ_g.6 AT1G54100_circ_g.8 AT1G54100_circ_g.9 AT1G54100_circ_g.10 AT1G54100_circ_g.11 AT1G54100_circ_g.12 AT1G54100_circ_g.13 AT1G54100_circ_g.14 AT1G54100_circ_g.15 AT1G54100_circ_g.16 AT1G54100_circ_g.17 AT1G54100_circ_g.18 AT1G54100_circ_g.19
Support reads	2/1
Tissues	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	AT1G54100.1:9 AT1G54100.2:9

			
						 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  
						
							CCGTTGGCTTGCCATTTGCCAGCAACGTAAGATCCCAAGTTGTGAGAAGTCAGCCCAATCTCAC
TCAGAAACTCGTACTCGTTGTTCGCCGAACCCATCTcagcctacggcaagttgtgcaacgttga
ccagcagttccaaccgcagcgaatagaacagatcgagccgctaactgtatatcagcatcgtcca
tgactatg

									
								

					

						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: 920
Transcript exons: 20196484-20196660,20196748-20196928,20197225-20197270,20
197587-20197650,20197736-20197758,20197905-20197977,2019
8162-20198293,20198379-20198465,20198719-20198855
CAGCCTACGGCAAGTTGTGCAACGTTGACCAGCAGTTCCAACCGCAGCGAATAGAACAGATCGA
GCCGCTAACTGTATATCAGCATCGTCCATGACTATGATTGCATTGTTTCCACTCAACTCAAGCA
AAGTTTTCCCAGATCTCGCATTCACTGTTTGTTGTACCATTGAGCCCACCCTGGAGCTTCCAGT
AAAGGATACTAAGGGAATGCGTGTGTCTTTGGCTATTGCTTCACCAATTTCAGCACCACCACAC
ATGGCCGTAAAAATGGCACCGGGTAAGTTGTTTTTCTCTAAAACTTCAGCTACTAGCTTGGTCA
TTGCGATAGTTATTAACGGTGTAGTTGGAGCACCTTTCCAGACTACACAGTTTCCACAGACAAG
AGCAATACAAGCATTCCAACCAAGAACTGCACAGGGAAAATTAAACGCTGTGATAACACCAACA
ATGCCAAGAGGATTCCACATCTCCAACATCATGTGGTTAGGGCGTTCTGAAGGTATAACCGATC
CATTGAGTTGTCGGCTCAAACCAACAGCAAAATCACACATGTCAATTACTTCCTGAACTTCTCC
AATACCTTCAGCAAGGATCTTTCCCATTTCAAGAGAAAGAAGACGACCAAGATAGTCAAGTTTG
GATCTTAGTGCATCCCCAATCTGTCTGACGATATCACCTCTCTTAGGAGCCGTAACCTGCATCC
ATATTTTAGCTGCTTCCTCGCAAGCTTTCAAACCTTGCTCGTAATCCTCTAGAGAAGCTTCCAC
AACTTGAGCAATTGGCTGATTGTTAGCAGGATTGAGAGTTGAAACAAGAGGTCCGTTGGCTTGC
CATTTGCCAGCAACGTAAGATCCCAAGTTGTGAGAAGTCAGCCCAATCTCACTCAGAAACTCGT
ACTCGTTGTTCGCCGAACCCATCT
						
					

						Genomic sequence
						
							CAGCCTACGGCAAGTTGTGCAACGTTGACCAGCAGTTCCAACCGCAGCGAATAGAACAGATCGA
GCCGCTAACTGTATATCAGCATCGTCCATGACTATGATTGCATTGTTTCCACTCAACTCAAGCA
AAGTTTTCCCAGATCTCGCATTCACTGTTTGTTGTACCATTGAGCCCACCTATGCATAATATTC
AAAGAGAAGACAATGATGGACCAGTAGGCTCAGTGTGTTTGGTTGGGAGGTGGAATATAGTTAA
GGAAGTACCCTGGAGCTTCCAGTAAAGGATACTAAGGGAATGCGTGTGTCTTTGGCTATTGCTT
CACCAATTTCAGCACCACCACACATGGCCGTAAAAATGGCACCGGGTAAGTTGTTTTTCTCTAA
AACTTCAGCTACTAGCTTGGTCATTGCGATAGTTATTAACGGTGTAGTTGGAGCACCTTTCCTG
TGGAATCACATGTATGATGTATTAAGTATTAGCTACACCAATCAAACCAATACAAATTTTCATT
GTCAAGATTAATATTGTGTTACTATTATGAAACGCAGTCTCTCAGCAATATGTCAGCACTATGT
TATATGACATTAAGGAGACGTTTATGCAACATTTGAGGATCAATGGAAATAGACAGCAATTGTA
ATAAGTATATATCGATAATTCCGCTTCTTATAGTAATTTTAACCTCTTACAGGAACTACTAGGT
TCTCAAAGCTTAAATCAGTGTCAAAGTCGTTATTTACCAGACTACACAGTTTCCACAGACAAGA
GCAATACAAGCATTCCAACCTGCAATACCACAAAAAATTTCCATTAACGCTGGGAAAAGAAAGC
AGAAACACAAAAATTTCCACATTGCATTATCAGTTATAAAACTTCTCAACATGGCAAAACCAGT
GTGGCAAATCTAGTTGCCACAATACGAGTTAGTTCATCTAACTCTATTGTGTCCACTTTCATGT
GGGAATTATAGACACTGAAATTGCAGAGCTACGAAGAAGCATGACAGACTTTAATGAGCAATCT
CACGAGACATCAGTGTTATATTGTTTCTATGTTTTGTGTGACGCACTCATAAAGATTTGAAATT
AGACAGAAGACTTACCAAGAACTGCACAGGGAAAATTAAACGCTGTGATAACACCAACAATGCC
AAGAGGATTCCACATCTGCGTTACAATGTTCAAGCCGAATGTTAATCATGTCCTAAGAAGTGGA
TCTACAAAACTTTGACAAAACAAACTTGCAATTCACCTCCAACATCATGTGGTTAGGGCCTGCA
ACCGAAAAAAAATGATATGAGTTAGAGAAAATCCTTTACATAAAAAAAAAAAGCATTTGCAACT
CCAAGTGCCTTCAAGGAGATATTTGAGGAAGATAAATCTAATCTAGGAACAAAATGTTAACAGA
AGCAAGAACTCACGTTCTGAAGGTATAACCGATCCATTGAGTTGTCGGCTCAAACCAACAGCAA
AATCACACATGTCAATTACTTCCTGCAAAGTATGCACTAAATGTATTAAGCTATATGGAAAAAG
TAGCAGCTAAGTTTCATATTAGCTATATCATAGATTCATAGGTTCTGTCCTTTGGGTAAAATGT
GTCACAAAGAAAAAAGTAGCTAAAGTCAAAATGTATGAATGAAAAAGAAACTAAGTATTGGAGA
CGGAGTAAAGATACCTGAACTTCTCCAATACCTTCAGCAAGGATCTTTCCCATTTCAAGAGAAA
GAAGACGACCAAGATAGTCAAGTTTGGATCTTAGTGCATCCCCAATCTGTCTGACGATATCACC
TCTCTTAGGAGCCGTAACCTGATAAAGATAACTCCACTTAGCTATTCGGTGCAAATTCACTCAA
TAACCAAAGCAAATTCGCTGAATGAAGTTAGAAAGCAACCTGCATCCATATTTTAGCTGCTTCC
TCGCAAGCTTTCAAACCTTGCTCGTAATCCTCTAGAGAAGCTTCCACAACTTGAGCAATTGGCT
GCATCAGTAAAAAACCAAAAAAAAATGATTATTGAGCAGAATATCATAGTAGACATGGAAGAGA
AAACAATTCACATCATCGAAACAAAATGAAACCAAAATTCAATCCACAAACAAACCAACCTTAG
AAAGTTCACAAGAATCAGGTCTAAACTCAATGATTGAAACCAATTTGATCTCCAGAAACATTCA
ATTATATAAAACTTTCATAGGCATTTTCAAAATCATGTAAGAAGAAACCGCGGAGAAACCTGAT
TGTTAGCAGGATTGAGAGTTGAAACAAGAGGTCCGTTGGCTTGCCATTTGCCAGCAACGTAAGA
TCCCAAGTTGTGAGAAGTCAGCCCAATCTCACTCAGAAACTCGTACTCGTTGTTCGCCGAACCC
ATCT
						
					

			
		

Sequences
Splice junction sequence	CCGTTGGCTTGCCATTTGCCAGCAACGTAAGATCCCAAGTTGTGAGAAGTCAGCCCAATCTCAC TCAGAAACTCGTACTCGTTGTTCGCCGAACCCATCTcagcctacggcaagttgtgcaacgttga ccagcagttccaaccgcagcgaatagaacagatcgagccgctaactgtatatcagcatcgtcca tgactatg
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: 920 Transcript exons: 20196484-20196660,20196748-20196928,20197225-20197270,20 197587-20197650,20197736-20197758,20197905-20197977,2019 8162-20198293,20198379-20198465,20198719-20198855 CAGCCTACGGCAAGTTGTGCAACGTTGACCAGCAGTTCCAACCGCAGCGAATAGAACAGATCGA GCCGCTAACTGTATATCAGCATCGTCCATGACTATGATTGCATTGTTTCCACTCAACTCAAGCA AAGTTTTCCCAGATCTCGCATTCACTGTTTGTTGTACCATTGAGCCCACCCTGGAGCTTCCAGT AAAGGATACTAAGGGAATGCGTGTGTCTTTGGCTATTGCTTCACCAATTTCAGCACCACCACAC ATGGCCGTAAAAATGGCACCGGGTAAGTTGTTTTTCTCTAAAACTTCAGCTACTAGCTTGGTCA TTGCGATAGTTATTAACGGTGTAGTTGGAGCACCTTTCCAGACTACACAGTTTCCACAGACAAG AGCAATACAAGCATTCCAACCAAGAACTGCACAGGGAAAATTAAACGCTGTGATAACACCAACA ATGCCAAGAGGATTCCACATCTCCAACATCATGTGGTTAGGGCGTTCTGAAGGTATAACCGATC CATTGAGTTGTCGGCTCAAACCAACAGCAAAATCACACATGTCAATTACTTCCTGAACTTCTCC AATACCTTCAGCAAGGATCTTTCCCATTTCAAGAGAAAGAAGACGACCAAGATAGTCAAGTTTG GATCTTAGTGCATCCCCAATCTGTCTGACGATATCACCTCTCTTAGGAGCCGTAACCTGCATCC ATATTTTAGCTGCTTCCTCGCAAGCTTTCAAACCTTGCTCGTAATCCTCTAGAGAAGCTTCCAC AACTTGAGCAATTGGCTGATTGTTAGCAGGATTGAGAGTTGAAACAAGAGGTCCGTTGGCTTGC CATTTGCCAGCAACGTAAGATCCCAAGTTGTGAGAAGTCAGCCCAATCTCACTCAGAAACTCGT ACTCGTTGTTCGCCGAACCCATCT
Genomic sequence	CAGCCTACGGCAAGTTGTGCAACGTTGACCAGCAGTTCCAACCGCAGCGAATAGAACAGATCGA GCCGCTAACTGTATATCAGCATCGTCCATGACTATGATTGCATTGTTTCCACTCAACTCAAGCA AAGTTTTCCCAGATCTCGCATTCACTGTTTGTTGTACCATTGAGCCCACCTATGCATAATATTC AAAGAGAAGACAATGATGGACCAGTAGGCTCAGTGTGTTTGGTTGGGAGGTGGAATATAGTTAA GGAAGTACCCTGGAGCTTCCAGTAAAGGATACTAAGGGAATGCGTGTGTCTTTGGCTATTGCTT CACCAATTTCAGCACCACCACACATGGCCGTAAAAATGGCACCGGGTAAGTTGTTTTTCTCTAA AACTTCAGCTACTAGCTTGGTCATTGCGATAGTTATTAACGGTGTAGTTGGAGCACCTTTCCTG TGGAATCACATGTATGATGTATTAAGTATTAGCTACACCAATCAAACCAATACAAATTTTCATT GTCAAGATTAATATTGTGTTACTATTATGAAACGCAGTCTCTCAGCAATATGTCAGCACTATGT TATATGACATTAAGGAGACGTTTATGCAACATTTGAGGATCAATGGAAATAGACAGCAATTGTA ATAAGTATATATCGATAATTCCGCTTCTTATAGTAATTTTAACCTCTTACAGGAACTACTAGGT TCTCAAAGCTTAAATCAGTGTCAAAGTCGTTATTTACCAGACTACACAGTTTCCACAGACAAGA GCAATACAAGCATTCCAACCTGCAATACCACAAAAAATTTCCATTAACGCTGGGAAAAGAAAGC AGAAACACAAAAATTTCCACATTGCATTATCAGTTATAAAACTTCTCAACATGGCAAAACCAGT GTGGCAAATCTAGTTGCCACAATACGAGTTAGTTCATCTAACTCTATTGTGTCCACTTTCATGT GGGAATTATAGACACTGAAATTGCAGAGCTACGAAGAAGCATGACAGACTTTAATGAGCAATCT CACGAGACATCAGTGTTATATTGTTTCTATGTTTTGTGTGACGCACTCATAAAGATTTGAAATT AGACAGAAGACTTACCAAGAACTGCACAGGGAAAATTAAACGCTGTGATAACACCAACAATGCC AAGAGGATTCCACATCTGCGTTACAATGTTCAAGCCGAATGTTAATCATGTCCTAAGAAGTGGA TCTACAAAACTTTGACAAAACAAACTTGCAATTCACCTCCAACATCATGTGGTTAGGGCCTGCA ACCGAAAAAAAATGATATGAGTTAGAGAAAATCCTTTACATAAAAAAAAAAAGCATTTGCAACT CCAAGTGCCTTCAAGGAGATATTTGAGGAAGATAAATCTAATCTAGGAACAAAATGTTAACAGA AGCAAGAACTCACGTTCTGAAGGTATAACCGATCCATTGAGTTGTCGGCTCAAACCAACAGCAA AATCACACATGTCAATTACTTCCTGCAAAGTATGCACTAAATGTATTAAGCTATATGGAAAAAG TAGCAGCTAAGTTTCATATTAGCTATATCATAGATTCATAGGTTCTGTCCTTTGGGTAAAATGT GTCACAAAGAAAAAAGTAGCTAAAGTCAAAATGTATGAATGAAAAAGAAACTAAGTATTGGAGA CGGAGTAAAGATACCTGAACTTCTCCAATACCTTCAGCAAGGATCTTTCCCATTTCAAGAGAAA GAAGACGACCAAGATAGTCAAGTTTGGATCTTAGTGCATCCCCAATCTGTCTGACGATATCACC TCTCTTAGGAGCCGTAACCTGATAAAGATAACTCCACTTAGCTATTCGGTGCAAATTCACTCAA TAACCAAAGCAAATTCGCTGAATGAAGTTAGAAAGCAACCTGCATCCATATTTTAGCTGCTTCC TCGCAAGCTTTCAAACCTTGCTCGTAATCCTCTAGAGAAGCTTCCACAACTTGAGCAATTGGCT GCATCAGTAAAAAACCAAAAAAAAATGATTATTGAGCAGAATATCATAGTAGACATGGAAGAGA AAACAATTCACATCATCGAAACAAAATGAAACCAAAATTCAATCCACAAACAAACCAACCTTAG AAAGTTCACAAGAATCAGGTCTAAACTCAATGATTGAAACCAATTTGATCTCCAGAAACATTCA ATTATATAAAACTTTCATAGGCATTTTCAAAATCATGTAAGAAGAAACCGCGGAGAAACCTGAT TGTTAGCAGGATTGAGAGTTGAAACAAGAGGTCCGTTGGCTTGCCATTTGCCAGCAACGTAAGA TCCCAAGTTGTGAGAAGTCAGCCCAATCTCACTCAGAAACTCGTACTCGTTGTTCGCCGAACCC ATCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.180964693

Conservation Information
Conserved circRNAs	NA
PMCS	0.180964693

			
						 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 AT1G54100_circ_g.7

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