Plant Circular RNA Database

Detail information of 4_circ_ag.15

			
						 General Information
					
						CircRNA Name
						4_circ_ag.15
					
						ID in PlantcircBase
						ath_circ_034319
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15973477-15976485  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 4_circ_ag.16 AT4G33120_circ_g.1 						
					
						Support reads
						130
					
						Tissues
						root, aerial, whole_plant
					
						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
						NA

General Information
CircRNA Name	4_circ_ag.15
ID in PlantcircBase	ath_circ_034319
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 15973477-15976485 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 4_circ_ag.16 AT4G33120_circ_g.1
Support reads	130
Tissues	root, aerial, whole_plant
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	NA

			
						 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  
						
							CTCGAACATTTCGATGGAGAATATCCGATCGTATGTCCCTTCATGCTCAAAAGTGCTAATATCC
GCAGCAATGATTTCGACATTCTGAAGCCCGAGTTTCcggcatttctcatcgataaatgctttct
gcgttttggagttgcagataccggttaacttgcatttgctgtacttgcgtgcaatgtacaaaga
caaggatc

									
								

					

						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: 734
Transcript exons: 15973477-15973613,15973776-15973810,15974345-15974481,15
975588-15975771,15975861-15975886,15976188-15976301,1597
6385-15976485
CGGCATTTCTCATCGATAAATGCTTTCTGCGTTTTGGAGTTGCAGATACCGGTTAACTTGCATT
TGCTGTACTTGCGTGCAATGTACAAAGACAAGGATCCCCAGCCACATCCGATATCAAGAACACT
TTGACCATCCTCGGTATGGATAGCTATAGGCATCTTCTTTATAGAGTCAACAAAACGGAGGAGA
TCGGAGAGTTGCATCTCCGCCGTGGGTTTGTAACCGGAACGGAGACGACCGGCCAGAAGCAGAC
GTGTGAGCCGCCTAATGACAATATCCGGCAACAGATTCATCTCCAACAACGTCTGAAGAGGAAG
TGTGCAATCATCCACTCGTCTCCATTGTTGTATGCGAAAAGCTCAGCAAGCGCGATGAAGAAGG
TTCTCCAGTAAACCGTCCACTTCACTGCTTCTTCTTTCCCATAAGTCACTTCCATTATCTCTTT
TACGGCAACTATCTCCTTATCCATTCCTTTCAGCCACTCTTCACTCTTGTCTTTGCATAATGCG
TCCCGTTCCTCAAAGTGGTAAGCATATGTCTTATGGCAGAGATAGTGAACAAACAGAAGACTAT
CTTCCTTCATCCAGTTTCCTATCTTCTTCAGTAGCTCTCCATAGTTTTTCATATGCTCCTCGAA
CATTTCGATGGAGAATATCCGATCGTATGTCCCTTCATGCTCAAAAGTGCTAATATCCGCAGCA
ATGATTTCGACATTCTGAAGCCCGAGTTTC
						
					

						Genomic sequence
						
							CGGCATTTCTCATCGATAAATGCTTTCTGCGTTTTGGAGTTGCAGATACCGGTTAACTTGCATT
TGCTGTACTTGCGTGCAATGTACAAAGACAAGGATCCCCAGCCACATCCGATATCAAGAACACT
TTGACCATCTTCCACTTTAGCTCTTTCACAATAAAGAGCCAAAATTGCTTCCTCTGCATCTTCT
AAGCTACTTGAATCGTTTGAGAAGTAACAAGAGCTGTACTTCATGTTTCTTCCAAGGACAAGTT
CGAAGAAAGCTGTCGGTAATTCATAGTGTTGAGTCTTTGGCTTCTCGGTATGGATAGCTATAGG
CATCTTCTTTATAGCTGAAGTATAGAACATCATTCATAAGAGATACTCGTTACATTTTGCAAAT
TTCTATAATGTGACAAACTATAAAATGTTCTAATTTTACAAATGTTTATAATTTTTCATTTGAA
TTAGTCTTATAGGCTTAGAGACGGGAGATCCAATGATCCAATGTAAATTTTTTAAAATTATACA
AATATATTAAAAGAAGAAGAAATTTTGTTTTCGTGGATCTCTCAACAACAATATCTAAACTACT
TTTTGTTTCACATTTCATTTTTACTCAAAAACTCAAACATCAACAAAAATTAATATTGTGCGGC
GCTAAAGCCGTCATGTTAGTTGTTTGCGGACGAAGCCCCACAAGCGAAGTACGTGTAACAACTT
GCAACACACACACACCAGATTGTTTCAAAATCGTCATAATAATCACTCAATAACACCAAAGCAA
AATTAACAAAATCTAGTCTAAAATATAAATAAATTAAATCTAGATGTTGAAAAGAAAAGAAAAA
CGAGCTTTTAATTATATATGTGTCAGTGACACTTACAGTCAACAAAACGGAGGAGATCGGAGAG
TTGCATCTCCGCCGTGGGTTTGTAACCGGAACGGAGACGACCGGCCAGAAGCAGACGTGTGAGC
CGCCTAATGACAATATCCGGCAACAGATTCATCTCCAACAACGTCAAACCCACCTTCACTGATG
CGCCATAAGCTACGTCAATAATCTTCTCCATCACTGACGCGCCTTCCTTTTTTTTTTGTCTCTT
GAGTTTTTTTTCCCTAAGGTACGATCTTAATGAGTGTAACGTTAAACATATAAATAGACACGGA
CGTAAAGTAAATAAGAAACAAATCAAACTCGTGGCTTTATTTCTTAATTCAACGTTCAGCCCAC
TAAGGATTGTTAATTACCTATTTACCTGTATTACCTTATTCTTTTGTTTGACTTCCATGTGACC
TAATTTTAGTTTATACGATTCGAAAAACGTATATCGCTATTAATTATAATTTTCTTATATTTAA
AACTCTTAACAAAACCTTATCTTATCTTATCTTTTTGCAGTTGTCCGTGCTTAAAATCAGATAT
CGCCATTTTGCTATGCCAAAGAAAAGTTGGAACCGGGCCGGTTTACGACTTTGATGGGCCTTCT
AGAATTTTATTTTTTGTTTTTTGGGGCCTTATATTATGTTTTTTAATCGGTAGTTAACCGATCA
TAACATAGATTAATTACTTTTATATCTTTTGTTATTCCAATTGTAGTTAATCAAAACCAACTCT
GTAAGTTTTTTAAAATTTAATTCCGGATGACAACTACACACTAGTTCTTATTCTAATCAAAAAT
TATTATGATTCAAAACTTTAAAAACGGATACATAATATTCAATTGACGAAAATAGATATGTTCA
ATGTTCGACATTAACTAAAATATTTAAAAAATAATTTAGAATCGTATCATATATAAAATTAACA
TTAATAAAATAAAATGAGTTTTTTTGGTGGAATGAGTTTTTGATTAACATTAATAAAATATTAA
AATATTATTATCTGGAAGTAGATGGTTAGCTGAATCCGACAAAGCAAGCTGCTGATTCAAAAGA
ATCCAGTTCATGATACTTGATCCCCATGTTTTTCGAGATAACATTGATAAATTGTCACTTTAAA
GAAGATTGAACAACTCTTTTGGTAGGAAACCATAAAGCCATAAAATCACAGAATACAAAGTAGA
ACGAGATTGTTGTATTCTTTATTCAAAAAGTGGAAGGAAAATAAAGAAATCATCATTTCTTCTT
GAAGAGGAAGTGTGCAATCATCCACTCGTCTCCATTGTTGTATGCGAAAAGCTCAGCAAGCGCG
ATGAAGAAGGTTCTCCAGTAAACCGTCCACTTCACTGCTTCTTCTTTCCCATAAGTCACTTCCA
TTATCTCTTTTACGGCAACTATCTCCTTATCCATTCCTTTCAGCCACTCTTCACTGCAAAATGT
TGTATCATAAAAGTAACAAACATTACAAGATCATTATCATCTTCACTTGCTTTTTACAACAAAT
TCTTCAGAGTTTTTACCTTGTCTTTGCATAATGCGTCCCGTTAACGAGCCAATGATCCATAATC
GAAACATTTTCCTGAACAAACACCAACATATTGATATATTTGGATTGATGATAATCTACCGAGT
CATACACAAGTTATAATGTATATTACTTGGAAATATAGGAGAAGATCTGCTGATGGCATTGTTC
CTCCGCTGAAGAAGTGTCTTGTGATCCAGTCATCGTCATTCACATCCTATAATGAATCAACACA
ATCCCAAGATTTAATTATTACCAAGAAAGCATGGTGAAGTAACTGACTAAACAAGAAGCTATCA
AATTAGACATTAATTGATCCACACCTCAAAGTGGTAAGCATATGTCTTATGGCAGAGATAGTGA
ACAAACAGAAGACTATCTTCCTTCATCCAGTTTCCTATCTTCTTCAGTAGCTCTCCATAGTTTT
TCATATGCTAATCACAATCCCAAGCCAAAGCTAAGATATAAACCTCTGATCTTTGACAGGCAAA
AATATAATGAAATAAAAACCAATCCAAACCTCGAACATTTCGATGGAGAATATCCGATCGTATG
TCCCTTCATGCTCAAAAGTGCTAATATCCGCAGCAATGATTTCGACATTCTGAAGCCCGAGTTT
C
						
					

			
		

Sequences
Splice junction sequence	CTCGAACATTTCGATGGAGAATATCCGATCGTATGTCCCTTCATGCTCAAAAGTGCTAATATCC GCAGCAATGATTTCGACATTCTGAAGCCCGAGTTTCcggcatttctcatcgataaatgctttct gcgttttggagttgcagataccggttaacttgcatttgctgtacttgcgtgcaatgtacaaaga caaggatc
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: 734 Transcript exons: 15973477-15973613,15973776-15973810,15974345-15974481,15 975588-15975771,15975861-15975886,15976188-15976301,1597 6385-15976485 CGGCATTTCTCATCGATAAATGCTTTCTGCGTTTTGGAGTTGCAGATACCGGTTAACTTGCATT TGCTGTACTTGCGTGCAATGTACAAAGACAAGGATCCCCAGCCACATCCGATATCAAGAACACT TTGACCATCCTCGGTATGGATAGCTATAGGCATCTTCTTTATAGAGTCAACAAAACGGAGGAGA TCGGAGAGTTGCATCTCCGCCGTGGGTTTGTAACCGGAACGGAGACGACCGGCCAGAAGCAGAC GTGTGAGCCGCCTAATGACAATATCCGGCAACAGATTCATCTCCAACAACGTCTGAAGAGGAAG TGTGCAATCATCCACTCGTCTCCATTGTTGTATGCGAAAAGCTCAGCAAGCGCGATGAAGAAGG TTCTCCAGTAAACCGTCCACTTCACTGCTTCTTCTTTCCCATAAGTCACTTCCATTATCTCTTT TACGGCAACTATCTCCTTATCCATTCCTTTCAGCCACTCTTCACTCTTGTCTTTGCATAATGCG TCCCGTTCCTCAAAGTGGTAAGCATATGTCTTATGGCAGAGATAGTGAACAAACAGAAGACTAT CTTCCTTCATCCAGTTTCCTATCTTCTTCAGTAGCTCTCCATAGTTTTTCATATGCTCCTCGAA CATTTCGATGGAGAATATCCGATCGTATGTCCCTTCATGCTCAAAAGTGCTAATATCCGCAGCA ATGATTTCGACATTCTGAAGCCCGAGTTTC
Genomic sequence	CGGCATTTCTCATCGATAAATGCTTTCTGCGTTTTGGAGTTGCAGATACCGGTTAACTTGCATT TGCTGTACTTGCGTGCAATGTACAAAGACAAGGATCCCCAGCCACATCCGATATCAAGAACACT TTGACCATCTTCCACTTTAGCTCTTTCACAATAAAGAGCCAAAATTGCTTCCTCTGCATCTTCT AAGCTACTTGAATCGTTTGAGAAGTAACAAGAGCTGTACTTCATGTTTCTTCCAAGGACAAGTT CGAAGAAAGCTGTCGGTAATTCATAGTGTTGAGTCTTTGGCTTCTCGGTATGGATAGCTATAGG CATCTTCTTTATAGCTGAAGTATAGAACATCATTCATAAGAGATACTCGTTACATTTTGCAAAT TTCTATAATGTGACAAACTATAAAATGTTCTAATTTTACAAATGTTTATAATTTTTCATTTGAA TTAGTCTTATAGGCTTAGAGACGGGAGATCCAATGATCCAATGTAAATTTTTTAAAATTATACA AATATATTAAAAGAAGAAGAAATTTTGTTTTCGTGGATCTCTCAACAACAATATCTAAACTACT TTTTGTTTCACATTTCATTTTTACTCAAAAACTCAAACATCAACAAAAATTAATATTGTGCGGC GCTAAAGCCGTCATGTTAGTTGTTTGCGGACGAAGCCCCACAAGCGAAGTACGTGTAACAACTT GCAACACACACACACCAGATTGTTTCAAAATCGTCATAATAATCACTCAATAACACCAAAGCAA AATTAACAAAATCTAGTCTAAAATATAAATAAATTAAATCTAGATGTTGAAAAGAAAAGAAAAA CGAGCTTTTAATTATATATGTGTCAGTGACACTTACAGTCAACAAAACGGAGGAGATCGGAGAG TTGCATCTCCGCCGTGGGTTTGTAACCGGAACGGAGACGACCGGCCAGAAGCAGACGTGTGAGC CGCCTAATGACAATATCCGGCAACAGATTCATCTCCAACAACGTCAAACCCACCTTCACTGATG CGCCATAAGCTACGTCAATAATCTTCTCCATCACTGACGCGCCTTCCTTTTTTTTTTGTCTCTT GAGTTTTTTTTCCCTAAGGTACGATCTTAATGAGTGTAACGTTAAACATATAAATAGACACGGA CGTAAAGTAAATAAGAAACAAATCAAACTCGTGGCTTTATTTCTTAATTCAACGTTCAGCCCAC TAAGGATTGTTAATTACCTATTTACCTGTATTACCTTATTCTTTTGTTTGACTTCCATGTGACC TAATTTTAGTTTATACGATTCGAAAAACGTATATCGCTATTAATTATAATTTTCTTATATTTAA AACTCTTAACAAAACCTTATCTTATCTTATCTTTTTGCAGTTGTCCGTGCTTAAAATCAGATAT CGCCATTTTGCTATGCCAAAGAAAAGTTGGAACCGGGCCGGTTTACGACTTTGATGGGCCTTCT AGAATTTTATTTTTTGTTTTTTGGGGCCTTATATTATGTTTTTTAATCGGTAGTTAACCGATCA TAACATAGATTAATTACTTTTATATCTTTTGTTATTCCAATTGTAGTTAATCAAAACCAACTCT GTAAGTTTTTTAAAATTTAATTCCGGATGACAACTACACACTAGTTCTTATTCTAATCAAAAAT TATTATGATTCAAAACTTTAAAAACGGATACATAATATTCAATTGACGAAAATAGATATGTTCA ATGTTCGACATTAACTAAAATATTTAAAAAATAATTTAGAATCGTATCATATATAAAATTAACA TTAATAAAATAAAATGAGTTTTTTTGGTGGAATGAGTTTTTGATTAACATTAATAAAATATTAA AATATTATTATCTGGAAGTAGATGGTTAGCTGAATCCGACAAAGCAAGCTGCTGATTCAAAAGA ATCCAGTTCATGATACTTGATCCCCATGTTTTTCGAGATAACATTGATAAATTGTCACTTTAAA GAAGATTGAACAACTCTTTTGGTAGGAAACCATAAAGCCATAAAATCACAGAATACAAAGTAGA ACGAGATTGTTGTATTCTTTATTCAAAAAGTGGAAGGAAAATAAAGAAATCATCATTTCTTCTT GAAGAGGAAGTGTGCAATCATCCACTCGTCTCCATTGTTGTATGCGAAAAGCTCAGCAAGCGCG ATGAAGAAGGTTCTCCAGTAAACCGTCCACTTCACTGCTTCTTCTTTCCCATAAGTCACTTCCA TTATCTCTTTTACGGCAACTATCTCCTTATCCATTCCTTTCAGCCACTCTTCACTGCAAAATGT TGTATCATAAAAGTAACAAACATTACAAGATCATTATCATCTTCACTTGCTTTTTACAACAAAT TCTTCAGAGTTTTTACCTTGTCTTTGCATAATGCGTCCCGTTAACGAGCCAATGATCCATAATC GAAACATTTTCCTGAACAAACACCAACATATTGATATATTTGGATTGATGATAATCTACCGAGT CATACACAAGTTATAATGTATATTACTTGGAAATATAGGAGAAGATCTGCTGATGGCATTGTTC CTCCGCTGAAGAAGTGTCTTGTGATCCAGTCATCGTCATTCACATCCTATAATGAATCAACACA ATCCCAAGATTTAATTATTACCAAGAAAGCATGGTGAAGTAACTGACTAAACAAGAAGCTATCA AATTAGACATTAATTGATCCACACCTCAAAGTGGTAAGCATATGTCTTATGGCAGAGATAGTGA ACAAACAGAAGACTATCTTCCTTCATCCAGTTTCCTATCTTCTTCAGTAGCTCTCCATAGTTTT TCATATGCTAATCACAATCCCAAGCCAAAGCTAAGATATAAACCTCTGATCTTTGACAGGCAAA AATATAATGAAATAAAAACCAATCCAAACCTCGAACATTTCGATGGAGAATATCCGATCGTATG TCCCTTCATGCTCAAAAGTGCTAATATCCGCAGCAATGATTTCGACATTCTGAAGCCCGAGTTT C

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.66942791

Conservation Information
Conserved circRNAs	NA
PMCS	0.66942791

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 4_circ_ag.15

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