Plant Circular RNA Database

Detail information of AT4G00730_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G00730_circ_g.1
					
						ID in PlantcircBase
						ath_circ_029107
					
						Alias
						4:302204-303825
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 302204-303825  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G00730						
					
						Parent gene annotation
						
							Homeobox-leucine zipper protein ANTHOCYANINLESS 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G00730_circ_g.2 AT4G00730_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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
						AT4G00730.1:5
AT4G00730.2:5

General Information
CircRNA Name	AT4G00730_circ_g.1
ID in PlantcircBase	ath_circ_029107
Alias	4:302204-303825
Organism	Arabidpsis thaliana
Position	chr4: 302204-303825 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G00730
Parent gene annotation	Homeobox-leucine zipper protein ANTHOCYANINLESS 2
Parent gene strand	-
Alternative splicing	AT4G00730_circ_g.2 AT4G00730_circ_g.3
Support reads	1/1
Tissues	seedling;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	AT4G00730.1:5 AT4G00730.2:5

			
						 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  
						
							TTCTGTTCACACTCCCATCGAAAGTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGA
TGCTTCTCCACGGTTGGTTCCTCTCTCCGGTTGCTCcttagagtatccattagacacatcctgc
accacacatcctgatggtagtcgccggattaccggggcaccaccagagttttccctgacaggat
caattgat

									
								

					

						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: 1293
Transcript exons: 302204-302410,302497-302598,302681-303301,303376-303493,
303581-303825
CTTAGAGTATCCATTAGACACATCCTGCACCACACATCCTGATGGTAGTCGCCGGATTACCGGG
GCACCACCAGAGTTTTCCCTGACAGGATCAATTGATACATCCACCACCGCCCACACACCCTCCG
CGTGCTGTTTGCAGAACCGGAGGAAATTAACATTACGAACCGGAACCAGTGGAGACAAAACTTG
TAGCTCTGCATTCATCAGTTGAAGTGCACCATTTATTGTTCCAGCCATCCCACCGGATATAACG
TCGGTGGTTGTAGCTCTTGCGACGTTACACGGGAACATCTCCGTCCACCGATTGGAGTCCATTA
AAGTCTCGACGAGAGCTAAGCTATTGATGATGACCATACCAGAGGTTCTAGAAGCTTCAGTAGC
TAAACCGGTTGGTTTAGTAGATGAAAATGTTCTCATGTACTCATCTTGGTTAAGCTCGTCTCTC
TCACCGTCCAAGCTTTTGACCCATAACGGTTCTTCACTCTGAGCAAGCTTCACTAACTCATCCA
TAGCAGTTAAAGCCAGCTCCAGCAAAACTGACTTCTGATCAATCCCATTAATCACCGTCGACTG
CTGCTGCTGCGGAGGTAAGCAACCACCACCACCGCCGAAATCAGGAGGGAAAGCGAAATGTCCA
CCGTTGTTGTTGGTGCCGACAGCGAGTTCTAAGGAGGAGTTGTAGTGGTGATTATGGTGGTGGC
CAAGGAACTTACCGGTGAGGTTACAGACACGATCAAGCTCGTCTTTTAAACGAGCGTTTTCGAT
ACGGAGATGATGTTCTTCAAGAGAGACATCACCAAGCATGGCAGGTCCACCACAATTGGTGCAG
ATTGGATTCCTCATTGCTTCACGAATAGACATGTTCTCAGCTCTTAACTTATCGTTCTCTTGTC
TCAATAACGCGTTCTCATGCCTCTCTAATTGAGTCTTCATCTGAGTGCGACGATTCTGGAACCA
GAACTTGACTTGTCTTGTCTCTAAGCAAAGTCTCTTACTTAGTTCTAATCTTTGTTTCTCGTCT
GGATGCGGACACTCTTTGAACATAGATTCGAGTTCTTGGATTTGTTGAGGAGTGTGTCGGTGAT
AACGTTTCTTCCGAGGAGGCTTATCAGCAGCGTCTTGATCTTCACCGGAGATACCTTCAACGTT
ATCACTACCAGATCTACTCTCATGTTCTTCTTCTCGGCTTCTTCTGTTCACACTCCCATCGAAA
GTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGATGCTTCTCCACGGTTGGTTCCTC
TCTCCGGTTGCTC
						
					

						Genomic sequence
						
							CTTAGAGTATCCATTAGACACATCCTGCACCACACATCCTGATGGTAGTCGCCGGATTACCGGG
GCACCACCAGAGTTTTCCCTGACAGGATCAATTGATACATCCACCACCGCCCACACACCCTCCG
CGTGCTGTTTGCAGAACCGGAGGAAATTAACATTACGAACCGGAACCAGTGGAGACAAAACTTG
TAGCTCTGCATTCATCTGCACGTACGTACATTAGTATATTCAAACCGGTTTACTATAACATTAA
ACCGGAATGTGATTGATTAAGAAGATATTTGGTTTACCAGTTGAAGTGCACCATTTATTGTTCC
AGCCATCCCACCGGATATAACGTCGGTGGTTGTAGCTCTTGCGACGTTACACGGGAACATCTCC
GTCCACCGATTCTGATGAACAAAAAATATAATCAGAGAACAAAAAAAAGATATGGGAATAAAAA
CAAAAAATCGCAAAAAATCGAAAACTTACGGAGTCCATTAAAGTCTCGACGAGAGCTAAGCTAT
TGATGATGACCATACCAGAGGTTCTAGAAGCTTCAGTAGCTAAACCGGTTGGTTTAGTAGATGA
AAATGTTCTCATGTACTCATCTTGGTTAAGCTCGTCTCTCTCACCGTCCAAGCTTTTGACCCAT
AACGGTTCTTCACTCTGAGCAAGCTTCACTAACTCATCCATAGCAGTTAAAGCCAGCTCCAGCA
AAACTGACTTCTGATCAATCCCATTAATCACCGTCGACTGCTGCTGCTGCGGAGGTAAGCAACC
ACCACCACCGCCGAAATCAGGAGGGAAAGCGAAATGTCCACCGTTGTTGTTGGTGCCGACAGCG
AGTTCTAAGGAGGAGTTGTAGTGGTGATTATGGTGGTGGCCAAGGAACTTACCGGTGAGGTTAC
AGACACGATCAAGCTCGTCTTTTAAACGAGCGTTTTCGATACGGAGATGATGTTCTTCAAGAGA
GACATCACCAAGCATGGCAGGTCCACCACAATTGGTGCAGATTGGATTCCTCATTGCTTCACGA
ATAGACATGTTCTCAGCTCTTAACTTATCGTTCTCTTGTCTCAATAACGCGTTCTCATGCCTCT
CTAATTGAGTCTGCGCCACAATATGATTTTATTACAAAAGAATTCATTTTTTGGGATTAAAGAT
GTGATTTAATCTCCACATACCTTCATCTGAGTGCGACGATTCTGGAACCAGAACTTGACTTGTC
TTGTCTCTAAGCAAAGTCTCTTACTTAGTTCTAATCTTTGTTTCTCGTCTGGATGCGGACACTC
TTTGAACATACTGAAAGCAAAAACTCAGATTCATTAGATCGAATAAAAGAGATGATGGTAATAA
CAATATGGATATTGGATCGAAAGGTATAATTACGATTCGAGTTCTTGGATTTGTTGAGGAGTGT
GTCGGTGATAACGTTTCTTCCGAGGAGGCTTATCAGCAGCGTCTTGATCTTCACCGGAGATACC
TTCAACGTTATCACTACCAGATCTACTCTCATGTTCTTCTTCTCGGCTTCTTCTGTTCACACTC
CCATCGAAAGTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGATGCTTCTCCACGGT
TGGTTCCTCTCTCCGGTTGCTC
						
					

			
		

Sequences
Splice junction sequence	TTCTGTTCACACTCCCATCGAAAGTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGA TGCTTCTCCACGGTTGGTTCCTCTCTCCGGTTGCTCcttagagtatccattagacacatcctgc accacacatcctgatggtagtcgccggattaccggggcaccaccagagttttccctgacaggat caattgat
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: 1293 Transcript exons: 302204-302410,302497-302598,302681-303301,303376-303493, 303581-303825 CTTAGAGTATCCATTAGACACATCCTGCACCACACATCCTGATGGTAGTCGCCGGATTACCGGG GCACCACCAGAGTTTTCCCTGACAGGATCAATTGATACATCCACCACCGCCCACACACCCTCCG CGTGCTGTTTGCAGAACCGGAGGAAATTAACATTACGAACCGGAACCAGTGGAGACAAAACTTG TAGCTCTGCATTCATCAGTTGAAGTGCACCATTTATTGTTCCAGCCATCCCACCGGATATAACG TCGGTGGTTGTAGCTCTTGCGACGTTACACGGGAACATCTCCGTCCACCGATTGGAGTCCATTA AAGTCTCGACGAGAGCTAAGCTATTGATGATGACCATACCAGAGGTTCTAGAAGCTTCAGTAGC TAAACCGGTTGGTTTAGTAGATGAAAATGTTCTCATGTACTCATCTTGGTTAAGCTCGTCTCTC TCACCGTCCAAGCTTTTGACCCATAACGGTTCTTCACTCTGAGCAAGCTTCACTAACTCATCCA TAGCAGTTAAAGCCAGCTCCAGCAAAACTGACTTCTGATCAATCCCATTAATCACCGTCGACTG CTGCTGCTGCGGAGGTAAGCAACCACCACCACCGCCGAAATCAGGAGGGAAAGCGAAATGTCCA CCGTTGTTGTTGGTGCCGACAGCGAGTTCTAAGGAGGAGTTGTAGTGGTGATTATGGTGGTGGC CAAGGAACTTACCGGTGAGGTTACAGACACGATCAAGCTCGTCTTTTAAACGAGCGTTTTCGAT ACGGAGATGATGTTCTTCAAGAGAGACATCACCAAGCATGGCAGGTCCACCACAATTGGTGCAG ATTGGATTCCTCATTGCTTCACGAATAGACATGTTCTCAGCTCTTAACTTATCGTTCTCTTGTC TCAATAACGCGTTCTCATGCCTCTCTAATTGAGTCTTCATCTGAGTGCGACGATTCTGGAACCA GAACTTGACTTGTCTTGTCTCTAAGCAAAGTCTCTTACTTAGTTCTAATCTTTGTTTCTCGTCT GGATGCGGACACTCTTTGAACATAGATTCGAGTTCTTGGATTTGTTGAGGAGTGTGTCGGTGAT AACGTTTCTTCCGAGGAGGCTTATCAGCAGCGTCTTGATCTTCACCGGAGATACCTTCAACGTT ATCACTACCAGATCTACTCTCATGTTCTTCTTCTCGGCTTCTTCTGTTCACACTCCCATCGAAA GTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGATGCTTCTCCACGGTTGGTTCCTC TCTCCGGTTGCTC
Genomic sequence	CTTAGAGTATCCATTAGACACATCCTGCACCACACATCCTGATGGTAGTCGCCGGATTACCGGG GCACCACCAGAGTTTTCCCTGACAGGATCAATTGATACATCCACCACCGCCCACACACCCTCCG CGTGCTGTTTGCAGAACCGGAGGAAATTAACATTACGAACCGGAACCAGTGGAGACAAAACTTG TAGCTCTGCATTCATCTGCACGTACGTACATTAGTATATTCAAACCGGTTTACTATAACATTAA ACCGGAATGTGATTGATTAAGAAGATATTTGGTTTACCAGTTGAAGTGCACCATTTATTGTTCC AGCCATCCCACCGGATATAACGTCGGTGGTTGTAGCTCTTGCGACGTTACACGGGAACATCTCC GTCCACCGATTCTGATGAACAAAAAATATAATCAGAGAACAAAAAAAAGATATGGGAATAAAAA CAAAAAATCGCAAAAAATCGAAAACTTACGGAGTCCATTAAAGTCTCGACGAGAGCTAAGCTAT TGATGATGACCATACCAGAGGTTCTAGAAGCTTCAGTAGCTAAACCGGTTGGTTTAGTAGATGA AAATGTTCTCATGTACTCATCTTGGTTAAGCTCGTCTCTCTCACCGTCCAAGCTTTTGACCCAT AACGGTTCTTCACTCTGAGCAAGCTTCACTAACTCATCCATAGCAGTTAAAGCCAGCTCCAGCA AAACTGACTTCTGATCAATCCCATTAATCACCGTCGACTGCTGCTGCTGCGGAGGTAAGCAACC ACCACCACCGCCGAAATCAGGAGGGAAAGCGAAATGTCCACCGTTGTTGTTGGTGCCGACAGCG AGTTCTAAGGAGGAGTTGTAGTGGTGATTATGGTGGTGGCCAAGGAACTTACCGGTGAGGTTAC AGACACGATCAAGCTCGTCTTTTAAACGAGCGTTTTCGATACGGAGATGATGTTCTTCAAGAGA GACATCACCAAGCATGGCAGGTCCACCACAATTGGTGCAGATTGGATTCCTCATTGCTTCACGA ATAGACATGTTCTCAGCTCTTAACTTATCGTTCTCTTGTCTCAATAACGCGTTCTCATGCCTCT CTAATTGAGTCTGCGCCACAATATGATTTTATTACAAAAGAATTCATTTTTTGGGATTAAAGAT GTGATTTAATCTCCACATACCTTCATCTGAGTGCGACGATTCTGGAACCAGAACTTGACTTGTC TTGTCTCTAAGCAAAGTCTCTTACTTAGTTCTAATCTTTGTTTCTCGTCTGGATGCGGACACTC TTTGAACATACTGAAAGCAAAAACTCAGATTCATTAGATCGAATAAAAGAGATGATGGTAATAA CAATATGGATATTGGATCGAAAGGTATAATTACGATTCGAGTTCTTGGATTTGTTGAGGAGTGT GTCGGTGATAACGTTTCTTCCGAGGAGGCTTATCAGCAGCGTCTTGATCTTCACCGGAGATACC TTCAACGTTATCACTACCAGATCTACTCTCATGTTCTTCTTCTCGGCTTCTTCTGTTCACACTC CCATCGAAAGTATCGCCTCCTCCTCCGACGTTATTATTGTTCCTCATCGATGCTTCTCCACGGT TGGTTCCTCTCTCCGGTTGCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.298951554

Conservation Information
Conserved circRNAs	NA
PMCS	0.298951554

			
						 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 AT4G00730_circ_g.1

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