Plant Circular RNA Database

Detail information of AT3G07610_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G07610_circ_g.2
					
						ID in PlantcircBase
						ath_circ_020325
					
						Alias
						3:2428947-2431386
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 2428947-2431386  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G07610						
					
						Parent gene annotation
						
							Transcription factor jumonji (JmjC) domain-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G07610_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							No-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
						AT3G07610.2:1
AT3G07610.3:3
AT3G07610.1:2

General Information
CircRNA Name	AT3G07610_circ_g.2
ID in PlantcircBase	ath_circ_020325
Alias	3:2428947-2431386
Organism	Arabidpsis thaliana
Position	chr3: 2428947-2431386 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G07610
Parent gene annotation	Transcription factor jumonji (JmjC) domain-containing protein
Parent gene strand	+
Alternative splicing	AT3G07610_circ_g.1
Support reads	2
Tissues	root
Exon boundary	No-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	AT3G07610.2:1 AT3G07610.3:3 AT3G07610.1:2

			
						 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  
						
							TTGGGACATTTTCCGTAGAGAAGATATTCCTAAATTAGAAAGTTACATTGAGAAACATCACAAG
GAGTTCAGACATCTCTACTGCTGTCCTGTGTCTCAGtttgcctttgaagcattacactcatccg
gttaatggacctttgaatctcgctgtcaagcttccccaaaattgcttgaagccagacatgggac
caaagacg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							TTTGCCTTTGAAGCATTACACTCATCCGGTTAATGGACCTTTGAATCTCGCTGTCAAGCTTCCC
CAAAATTGCTTGAAGCCAGACATGGGACCAAAGACGTACGTTGCTTCTGGATTTGCTCAAGAAT
TAGGCCGTGGAGATTCTGTTACTAAGCTCCACTGCGACATGTCTGATGCGGTTAGTACCCATAT
GATTTGTCTTTTCTCGTTTTCATATCCATTTCTTTCTTCTAAGTCTGTCCATTCTTATTGTTTT
TCTTTGCACATCTATAATGATTTCAGAACCTATGAAAACATTAAAATCAGATACCATTTCCTAA
TCGGTCACTTAGATTTTTTATTACATTTAGGATTCGTCTCCTCTTCTTTTCCAGATCAGTTCCT
TAAGTTATTCTGTTTTTCTTTTGGCTGAGTTTTGTGGACTCTTTCGTTGAACTCCTCTTTTTCG
CATTTTATTCGGGCTACACTCCTCCTTTGAAGCAAAGGAACTCTCCTTAGATTTGTTGCATCCT
CATATTCTGCTTTAGGGCCGAAAATCAAAGTCTCTGGCCTAATGTTCTTGAACATTCTAAGATT
GCAATGTCCATTTGAAAGTTCTTACGCTGTTCATAGGACCTATGGACCAAGCTTTATCCATTCA
ATGTGAGTCCATCAATAGCTTTCTTAGTCCTTCATAGGCCTGGCATTCGGTTTTTGGTTCTGTT
AAGTTCGTTTTTTCCGGGTTTGGAAATTGCCCCCAAAAAGAATCGGATGTTATTTCGGTTTGGT
ATATAATAAATGAAATTTAATAAAAAATATTAATCTTAGGTAAATGTTTTGACAAAAAACAAAA
TAAAAACTTGTACAGGTTAATGTATTTTTAGGTAAATGTATTTTTTGTGCGCACCCCAAAGCCT
TCATCCATTCTGCTTAGTAGAGCACTTTGCTTAGGTGGATTGTATCTCAGACTTTCATAGGATG
ATCGTCTAAATAGTATACGGAAAAGATGCGACATTATGGTCAGCTCCGTGGATATCTGCTGTTC
AAGACGCAAGAAATTGTTCGTTTTGCTGGCGCGGGCGAGGACTATTAAATCAAGTTTGTTTAGT
TGCTGCCAGTTGAGCTTCCCAATTCGGCAATGACCGATCTTAAATTTGAAAATGCTGGTTTTTC
AGCATTTTATAAATGTTTGATTGCGGGACTAATTTGGCTAACATTGAACTTGGTAGACAAAATC
GTCGAATAGTTGAAAAATGAGATTATTATTGAATGAATACACATTGAATGCAAAGATTACGCAT
TTCATTTGTGGTAATAGTTCCAAAAGAAAAATAAAGTGTTTGTGATTGTTCGAGAAGATATGAA
ACAACAGATACAATAGAGCTAATCGTCGATACAACTGGTGTAGCCAATTATAGTCGTCTGTCGT
ATCAATAATGACAATTAAACTGAAATGCCTAGATTTTACATGTTGCTGCTACCACTAGTTGCCA
GAACTGGAACCAAAATTAATGACCAACATCAATTTCGCAGAATTGTCAGTACTAGAACCGAAAT
CCTGATTGAACATCCCGAGCTGTTGTTACTTCTTGATATTGTTCGGAATGATGTTATTCTCTCA
CATCCTACACTTTTCATAACCTTGTAAGCGACAAAACACATTGAAATCGATTATGAGATGATGC
AGTTGATTTTTTTTCAAATCATCAGTAAACATGAACTTGTTGATTTCTACCTCAATGACTCTTT
CCAATTAGGTCAAAAAAAAGTTGTCATTATAGAAAATAAATAATTATTTTTCTCTTTGGTTTTT
TGCCAAAAAAAAGAATTTGGTCAATAAAACAAAAAAAATTAGGTCAAGCATTTTTTTTTTTTTT
TGGTCAATAGTTAATTTAGTAGATTTTGGTTTTGTGTTATTACATCATTACCTTCCGTTTTTTT
CTCAATACTTCTTTTATGACCATTTAATCTCTTAGAAACGAAAATAAACATAATCTCTCTCCTC
GCTTTCTAATTAAAATAATAGTTTGAAATAAAGGTCAACTGTTGCTGTAAAATAAAATAAAAAA
TAACGGTCCAGGGTGTTATTTTTATATTATAATTAGTTTTACTCACTTTTATCTTAACTTTTCT
TCTTTAGTATCTTAATATCTGTACCCTTTGGTTATTTCAGGTGAATATTTTGACGCACATATCT
GAAGTGCCCAATATGCAACCTGGAATTGGAAATCTGAAAAAGAAGCATGCCGAACAAGATCTCA
AGGAGCTGTATAGCTCAGTAGCTAACAAGGAGGAAATGATGGAGATTCTTGAAAATTCCAGACA
ACAAGTCCAAAATGTTGAAACTGATGATGGAGCTCTTTGGGACATTTTCCGTAGAGAAGATATT
CCTAAATTAGAAAGTTACATTGAGAAACATCACAAGGAGTTCAGACATCTCTACTGCTGTCCTG
TGTCTCAG
						
					

			
		

Sequences
Splice junction sequence	TTGGGACATTTTCCGTAGAGAAGATATTCCTAAATTAGAAAGTTACATTGAGAAACATCACAAG GAGTTCAGACATCTCTACTGCTGTCCTGTGTCTCAGtttgcctttgaagcattacactcatccg gttaatggacctttgaatctcgctgtcaagcttccccaaaattgcttgaagccagacatgggac caaagacg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TTTGCCTTTGAAGCATTACACTCATCCGGTTAATGGACCTTTGAATCTCGCTGTCAAGCTTCCC CAAAATTGCTTGAAGCCAGACATGGGACCAAAGACGTACGTTGCTTCTGGATTTGCTCAAGAAT TAGGCCGTGGAGATTCTGTTACTAAGCTCCACTGCGACATGTCTGATGCGGTTAGTACCCATAT GATTTGTCTTTTCTCGTTTTCATATCCATTTCTTTCTTCTAAGTCTGTCCATTCTTATTGTTTT TCTTTGCACATCTATAATGATTTCAGAACCTATGAAAACATTAAAATCAGATACCATTTCCTAA TCGGTCACTTAGATTTTTTATTACATTTAGGATTCGTCTCCTCTTCTTTTCCAGATCAGTTCCT TAAGTTATTCTGTTTTTCTTTTGGCTGAGTTTTGTGGACTCTTTCGTTGAACTCCTCTTTTTCG CATTTTATTCGGGCTACACTCCTCCTTTGAAGCAAAGGAACTCTCCTTAGATTTGTTGCATCCT CATATTCTGCTTTAGGGCCGAAAATCAAAGTCTCTGGCCTAATGTTCTTGAACATTCTAAGATT GCAATGTCCATTTGAAAGTTCTTACGCTGTTCATAGGACCTATGGACCAAGCTTTATCCATTCA ATGTGAGTCCATCAATAGCTTTCTTAGTCCTTCATAGGCCTGGCATTCGGTTTTTGGTTCTGTT AAGTTCGTTTTTTCCGGGTTTGGAAATTGCCCCCAAAAAGAATCGGATGTTATTTCGGTTTGGT ATATAATAAATGAAATTTAATAAAAAATATTAATCTTAGGTAAATGTTTTGACAAAAAACAAAA TAAAAACTTGTACAGGTTAATGTATTTTTAGGTAAATGTATTTTTTGTGCGCACCCCAAAGCCT TCATCCATTCTGCTTAGTAGAGCACTTTGCTTAGGTGGATTGTATCTCAGACTTTCATAGGATG ATCGTCTAAATAGTATACGGAAAAGATGCGACATTATGGTCAGCTCCGTGGATATCTGCTGTTC AAGACGCAAGAAATTGTTCGTTTTGCTGGCGCGGGCGAGGACTATTAAATCAAGTTTGTTTAGT TGCTGCCAGTTGAGCTTCCCAATTCGGCAATGACCGATCTTAAATTTGAAAATGCTGGTTTTTC AGCATTTTATAAATGTTTGATTGCGGGACTAATTTGGCTAACATTGAACTTGGTAGACAAAATC GTCGAATAGTTGAAAAATGAGATTATTATTGAATGAATACACATTGAATGCAAAGATTACGCAT TTCATTTGTGGTAATAGTTCCAAAAGAAAAATAAAGTGTTTGTGATTGTTCGAGAAGATATGAA ACAACAGATACAATAGAGCTAATCGTCGATACAACTGGTGTAGCCAATTATAGTCGTCTGTCGT ATCAATAATGACAATTAAACTGAAATGCCTAGATTTTACATGTTGCTGCTACCACTAGTTGCCA GAACTGGAACCAAAATTAATGACCAACATCAATTTCGCAGAATTGTCAGTACTAGAACCGAAAT CCTGATTGAACATCCCGAGCTGTTGTTACTTCTTGATATTGTTCGGAATGATGTTATTCTCTCA CATCCTACACTTTTCATAACCTTGTAAGCGACAAAACACATTGAAATCGATTATGAGATGATGC AGTTGATTTTTTTTCAAATCATCAGTAAACATGAACTTGTTGATTTCTACCTCAATGACTCTTT CCAATTAGGTCAAAAAAAAGTTGTCATTATAGAAAATAAATAATTATTTTTCTCTTTGGTTTTT TGCCAAAAAAAAGAATTTGGTCAATAAAACAAAAAAAATTAGGTCAAGCATTTTTTTTTTTTTT TGGTCAATAGTTAATTTAGTAGATTTTGGTTTTGTGTTATTACATCATTACCTTCCGTTTTTTT CTCAATACTTCTTTTATGACCATTTAATCTCTTAGAAACGAAAATAAACATAATCTCTCTCCTC GCTTTCTAATTAAAATAATAGTTTGAAATAAAGGTCAACTGTTGCTGTAAAATAAAATAAAAAA TAACGGTCCAGGGTGTTATTTTTATATTATAATTAGTTTTACTCACTTTTATCTTAACTTTTCT TCTTTAGTATCTTAATATCTGTACCCTTTGGTTATTTCAGGTGAATATTTTGACGCACATATCT GAAGTGCCCAATATGCAACCTGGAATTGGAAATCTGAAAAAGAAGCATGCCGAACAAGATCTCA AGGAGCTGTATAGCTCAGTAGCTAACAAGGAGGAAATGATGGAGATTCTTGAAAATTCCAGACA ACAAGTCCAAAATGTTGAAACTGATGATGGAGCTCTTTGGGACATTTTCCGTAGAGAAGATATT CCTAAATTAGAAAGTTACATTGAGAAACATCACAAGGAGTTCAGACATCTCTACTGCTGTCCTG TGTCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.119232766

Conservation Information
Conserved circRNAs	NA
PMCS	0.119232766

			
						 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 AT3G07610_circ_g.2

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