Plant Circular RNA Database

Detail information of AT5G15550_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G15550_circ_g.2
					
						ID in PlantcircBase
						ath_circ_038431
					
						Alias
						Chr5:5059047|5062035
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 5059047-5062035  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							AT5G15550						
					
						Parent gene annotation
						
							Ribosome biogenesis protein WDR12 homolog
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G15550_circ_g.1 AT5G15550_circ_g.3 AT5G15550_circ_g.4 AT5G15550_circ_g.5 AT5G15550_circ_g.6 AT5G15550_circ_g.7 AT5G15550_circ_g.8 AT5G15550_circ_g.9 AT5G15550_circ_g.10 						
					
						Support reads
						9
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-No							"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-TA							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
						AT5G15550.3:13
AT5G15550.1:13
AT5G15550.2:12

General Information
CircRNA Name	AT5G15550_circ_g.2
ID in PlantcircBase	ath_circ_038431
Alias	Chr5:5059047\|5062035
Organism	Arabidpsis thaliana
Position	chr5: 5059047-5062035 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	AT5G15550
Parent gene annotation	Ribosome biogenesis protein WDR12 homolog
Parent gene strand	-
Alternative splicing	AT5G15550_circ_g.1 AT5G15550_circ_g.3 AT5G15550_circ_g.4 AT5G15550_circ_g.5 AT5G15550_circ_g.6 AT5G15550_circ_g.7 AT5G15550_circ_g.8 AT5G15550_circ_g.9 AT5G15550_circ_g.10
Support reads	9
Tissues	seedling
Exon boundary	No-No "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-TA 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	AT5G15550.3:13 AT5G15550.1:13 AT5G15550.2:12

			
						 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  
						
							GGAGAGTCAAGCTTCGTCACGAACTTAACGTGAAGTCTTCTAGATACATCTTCTCCGTCGATAT
CCATTTTAGCCTCTTAACTTCTCCGATGGCCTGTTAccttttaagaaattgcgattccggaaga
aattcgcaagttagagtctgctcctccgctgactacactctctcctttccaccagtcagcagat
aaaacctt

									
								

					

						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
						
							CCTTTTAAGAAATTGCGATTCCGGAAGAAATTCGCAAGTTAGAGTCTGCTCCTCCGCTGACTAC
ACTCTCTCCTTTCCACCAGTCAGCAGATAAAACCTTTAAAACCAAGTTGTTTTATACCATTTCA
GTAACAAGAAGAACTAAAAGAGTAGAAGCTGGAAGATAACATTGTGTTTACTTTACCTTGTCAT
TGTGTGTATCAATTACTGACAAAGGCCACTGCAAAAGGAGGAAGAAGATTAGTTTTTAAAGATA
GAAAACCGTGGGTTATAACGGAAAGGAGTGTGTGTGCTTTGTCATTACAGCGGTTCTGAGATCC
CAGAGCATGATTTTGCCGTCGTAGGAAGCGGAGAGCAAGTGAAACCAAGAGCTTTTGTGCCACT
TACAGGCGGAAATCCATGATGAGTGTGAAGAGAACTGAAACACGGGAGCGGATGTTCCTACAGA
GTAAATGAAGACAGTTTATCAACTGTGTAATAAAAAACCGGTCTGGTTATATTGACTTGGTGTG
TGTTCATATGGATCTATCACCTGGCTTACGAGGATCCCATACTCTAAGGATTGGATCTGAGCCA
CCAGCAGCTATAAGGGCAGAACTTTCACCACCAACATCTACCGTGTTGAGAGCTTTTCCACAGA
ACTACAATTTCACAGAAACAAACCGGCTTTAAGTTTCCGGCGAAAACAACTTCAAAAGCACTGA
TTTTTCGGCAACAACATGTCTGGTGTGTGCCCTAATATTTACGAAAGAAAAGGAGAGAGAGAAG
GCATACCAAGTTCAAAGAATCTTTCCCTGTCTCAACATCCCATCTCCTAACGGAATGGTCCCAC
GAAGAGGAATAAATTACATCATGCTCTGGCCAAACAACTGATGATACACACTGTGTGTGTCCAA
CCAAAGAAGTCACTGCCTCTCCCTGTAAGAAGTTCAATATCGTAATTGATATCAGACACTTGGA
ACTCAGAAAAACACAACTGGGAGTACATTTCTCTATTTTGATTTGAAGAGTAGATAGTACGTTT
CAAAAGAATGCATATTATCCGGTACCTCTGACTGAGATTCCTCGGCCTGATTATTTCCTTTTCT
TTTCTTTACTGATACTGACTCCCCTTCTGAAGTAGATTCATTTGTGTTCCATAAATTGATGGTG
CAATCCCATGAACTCGAGCAAACCTAAATTCCATTATACAACAAAAAAAGGGGGTCAGCTTAGC
TCGAAGAAATATAGCAACAAAATTATACTTGCAAAACACAAGTTAAGTGAAAGGAGTAACAGCA
AACCATGTTTCCGGATTTCTGAGCTGAAACACTTTGAACTGACGCCTTGTGTCCACGCAATATC
TTGTATGCCCTTACTTTCGTAGTAGAGTCAACAGACTCAGCTGGATCAAACTTCAGACAGGGAG
AGATATCTTTACTTAGACGTAAAATAAACCTTTGGTTTTAAGTATGATATCTCATCCGTGATTA
CCTTAAACAATCTCAATGTCCGATCTTTAGAGGCAGTGGCTACAGTAACAGTTTCTGCATCTGG
ATGCACAAATCAACACAAAGAAAAACAAAGAATTGATCAATGAGCCAAAAAAGGGAAAATTTAT
TCTTGTTAGTATCATTTGCTAGTACAGAACAGGCATAGTATAGATTTCTCATGCGATGGTCATA
CCGTTGGAATTAACTAAAGCAACAGAGGAGATAGCCCCGGAGTGGCCTTCTAATATGTGTGAAC
ACGATCCAGCCGAACTCCATACCCTGATCAGAAGAAAAACCAAGTAATCTAAGATTCTTGCAAA
TTTTGAAAGCAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCA
AATGATCACCTTCCTAATCCGTCATAGCACCCAGTCAAAATGAACCTGCAAATAACAACAGCGA
GATCAAGAGAACCACTAACACAATCATTAAAACCAAGAACAAATGACTATATTCATCCTTAGAT
ATCATCCGGATCACTGGATGGCCTTGAATTGGAACAAATGAAGACTAATTCTAACAACATATGA
TATGGCAGTCGAATATATTAAACAAAGATACAGGTCTATGATTTTCCATATGGCAAGGTGGTTG
TGCGTAAAAATGAATAAGAGTTTTTAATTCAAATTACTGGTGTCACAGAAGAAATAGTAAAAGA
CATCTAGCAGCTTAAAGGAAATTCTACATCATAAAGTAATGCAGTAGGAAAAAATATTACCTGG
GAGAAGAACCATTAACCGCACTGACCCAATCATCATGCAAGGAGGGTTCTTCTTCCTTCCGTGG
TGTCACAGCCCTTATGTATTCGATTTCAAGAGTACGCTCCTGTAAGAACCAATGAACTTAATTA
AGTATATGTTTCCAAGATAAAGCACTATGGACTAATTCCAAGTACACTAGCTGGTGTGAATAGT
GGAAGATTAAGATGAAACACATTACCGCCGATATTCCCTTTGCAAGAAGAAACTCTTCGAGTGA
CATCCGAATAAGCTCCCCATCAATAAGGAAATCAAACGGCTCAGTTTTCCACTCTGGATTCTCT
GTTCATCCAAAAAGTCTCAGTGATGAATATTGCATAATCACAGGTAGAACAATAATATATGCTT
TTATGTAAGCTCTCTAATTCATAAGTACAAACAAGTTCCTAAGCAGACCTAACAAACTCTCGTA
TGAGAAAGAGACCACTATTCCAAGTAACACTTAGGATTTGACAAATTTAAAGACAAAGACGAAT
AAATACTAGCATTCGAAACTGCAGGGAGAGATGGAGAGAAAAGGCTACCGGATTCGATAATAGA
ATTGACGATGGAAGAGAGGCCGAGACGAGTGACATTAGAAGGGATTGCGACGGAGTTGACCGGA
ACTTTGAAGGGAGAGTCAAGCTTCGTCACGAACTTAACGTGAAGTCTTCTAGATACATCTTCTC
CGTCGATATCCATTTTAGCCTCTTAACTTCTCCGATGGCCTGTTA
						
					

			
		

Sequences
Splice junction sequence	GGAGAGTCAAGCTTCGTCACGAACTTAACGTGAAGTCTTCTAGATACATCTTCTCCGTCGATAT CCATTTTAGCCTCTTAACTTCTCCGATGGCCTGTTAccttttaagaaattgcgattccggaaga aattcgcaagttagagtctgctcctccgctgactacactctctcctttccaccagtcagcagat aaaacctt
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	CCTTTTAAGAAATTGCGATTCCGGAAGAAATTCGCAAGTTAGAGTCTGCTCCTCCGCTGACTAC ACTCTCTCCTTTCCACCAGTCAGCAGATAAAACCTTTAAAACCAAGTTGTTTTATACCATTTCA GTAACAAGAAGAACTAAAAGAGTAGAAGCTGGAAGATAACATTGTGTTTACTTTACCTTGTCAT TGTGTGTATCAATTACTGACAAAGGCCACTGCAAAAGGAGGAAGAAGATTAGTTTTTAAAGATA GAAAACCGTGGGTTATAACGGAAAGGAGTGTGTGTGCTTTGTCATTACAGCGGTTCTGAGATCC CAGAGCATGATTTTGCCGTCGTAGGAAGCGGAGAGCAAGTGAAACCAAGAGCTTTTGTGCCACT TACAGGCGGAAATCCATGATGAGTGTGAAGAGAACTGAAACACGGGAGCGGATGTTCCTACAGA GTAAATGAAGACAGTTTATCAACTGTGTAATAAAAAACCGGTCTGGTTATATTGACTTGGTGTG TGTTCATATGGATCTATCACCTGGCTTACGAGGATCCCATACTCTAAGGATTGGATCTGAGCCA CCAGCAGCTATAAGGGCAGAACTTTCACCACCAACATCTACCGTGTTGAGAGCTTTTCCACAGA ACTACAATTTCACAGAAACAAACCGGCTTTAAGTTTCCGGCGAAAACAACTTCAAAAGCACTGA TTTTTCGGCAACAACATGTCTGGTGTGTGCCCTAATATTTACGAAAGAAAAGGAGAGAGAGAAG GCATACCAAGTTCAAAGAATCTTTCCCTGTCTCAACATCCCATCTCCTAACGGAATGGTCCCAC GAAGAGGAATAAATTACATCATGCTCTGGCCAAACAACTGATGATACACACTGTGTGTGTCCAA CCAAAGAAGTCACTGCCTCTCCCTGTAAGAAGTTCAATATCGTAATTGATATCAGACACTTGGA ACTCAGAAAAACACAACTGGGAGTACATTTCTCTATTTTGATTTGAAGAGTAGATAGTACGTTT CAAAAGAATGCATATTATCCGGTACCTCTGACTGAGATTCCTCGGCCTGATTATTTCCTTTTCT TTTCTTTACTGATACTGACTCCCCTTCTGAAGTAGATTCATTTGTGTTCCATAAATTGATGGTG CAATCCCATGAACTCGAGCAAACCTAAATTCCATTATACAACAAAAAAAGGGGGTCAGCTTAGC TCGAAGAAATATAGCAACAAAATTATACTTGCAAAACACAAGTTAAGTGAAAGGAGTAACAGCA AACCATGTTTCCGGATTTCTGAGCTGAAACACTTTGAACTGACGCCTTGTGTCCACGCAATATC TTGTATGCCCTTACTTTCGTAGTAGAGTCAACAGACTCAGCTGGATCAAACTTCAGACAGGGAG AGATATCTTTACTTAGACGTAAAATAAACCTTTGGTTTTAAGTATGATATCTCATCCGTGATTA CCTTAAACAATCTCAATGTCCGATCTTTAGAGGCAGTGGCTACAGTAACAGTTTCTGCATCTGG ATGCACAAATCAACACAAAGAAAAACAAAGAATTGATCAATGAGCCAAAAAAGGGAAAATTTAT TCTTGTTAGTATCATTTGCTAGTACAGAACAGGCATAGTATAGATTTCTCATGCGATGGTCATA CCGTTGGAATTAACTAAAGCAACAGAGGAGATAGCCCCGGAGTGGCCTTCTAATATGTGTGAAC ACGATCCAGCCGAACTCCATACCCTGATCAGAAGAAAAACCAAGTAATCTAAGATTCTTGCAAA TTTTGAAAGCAATACAAAAGGATAGAAAATAATCAAAAGCATATAAGATTAAATAAATAAGTCA AATGATCACCTTCCTAATCCGTCATAGCACCCAGTCAAAATGAACCTGCAAATAACAACAGCGA GATCAAGAGAACCACTAACACAATCATTAAAACCAAGAACAAATGACTATATTCATCCTTAGAT ATCATCCGGATCACTGGATGGCCTTGAATTGGAACAAATGAAGACTAATTCTAACAACATATGA TATGGCAGTCGAATATATTAAACAAAGATACAGGTCTATGATTTTCCATATGGCAAGGTGGTTG TGCGTAAAAATGAATAAGAGTTTTTAATTCAAATTACTGGTGTCACAGAAGAAATAGTAAAAGA CATCTAGCAGCTTAAAGGAAATTCTACATCATAAAGTAATGCAGTAGGAAAAAATATTACCTGG GAGAAGAACCATTAACCGCACTGACCCAATCATCATGCAAGGAGGGTTCTTCTTCCTTCCGTGG TGTCACAGCCCTTATGTATTCGATTTCAAGAGTACGCTCCTGTAAGAACCAATGAACTTAATTA AGTATATGTTTCCAAGATAAAGCACTATGGACTAATTCCAAGTACACTAGCTGGTGTGAATAGT GGAAGATTAAGATGAAACACATTACCGCCGATATTCCCTTTGCAAGAAGAAACTCTTCGAGTGA CATCCGAATAAGCTCCCCATCAATAAGGAAATCAAACGGCTCAGTTTTCCACTCTGGATTCTCT GTTCATCCAAAAAGTCTCAGTGATGAATATTGCATAATCACAGGTAGAACAATAATATATGCTT TTATGTAAGCTCTCTAATTCATAAGTACAAACAAGTTCCTAAGCAGACCTAACAAACTCTCGTA TGAGAAAGAGACCACTATTCCAAGTAACACTTAGGATTTGACAAATTTAAAGACAAAGACGAAT AAATACTAGCATTCGAAACTGCAGGGAGAGATGGAGAGAAAAGGCTACCGGATTCGATAATAGA ATTGACGATGGAAGAGAGGCCGAGACGAGTGACATTAGAAGGGATTGCGACGGAGTTGACCGGA ACTTTGAAGGGAGAGTCAAGCTTCGTCACGAACTTAACGTGAAGTCTTCTAGATACATCTTCTC CGTCGATATCCATTTTAGCCTCTTAACTTCTCCGATGGCCTGTTA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121396833

Conservation Information
Conserved circRNAs	NA
PMCS	0.121396833

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							th-miRf10757-akr NA 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to methyl jasmonate

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	th-miRf10757-akr NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of AT5G15550_circ_g.2

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