Plant Circular RNA Database

Detail information of AT5G20450_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G20450_circ_g.1
					
						ID in PlantcircBase
						ath_circ_039474
					
						Alias
						5:6910674-6912811
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 6910674-6912811  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G20450						
					
						Parent gene annotation
						
							Dilute (InterPro:IPR002710)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G20450_circ_g.2 AT5G20450_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 5_circ_ag.9 5_circ_ag.10 5_circ_ag.11 AT5G20490_circ_g.1 AT5G20490_circ_g.2 AT5G20490_circ_g.3 AT5G20490_circ_g.4 						
					
						Support reads
						1/1/2
					
						Tissues
						seedling;root;flower
					
						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  
						
							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
						AT5G20450.1:8
AT5G20450.8:8
AT5G20450.10:8
AT5G20450.9:8
AT5G20450.3:8
AT5G20450.4:7
AT5G20450.12:8
AT5G20450.2:8
AT5G20450.7:7
AT5G20450.6:9
AT5G20450.5:9
AT5G20450.11:8

General Information
CircRNA Name	AT5G20450_circ_g.1
ID in PlantcircBase	ath_circ_039474
Alias	5:6910674-6912811
Organism	Arabidpsis thaliana
Position	chr5: 6910674-6912811 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G20450
Parent gene annotation	Dilute (InterPro:IPR002710)
Parent gene strand	-
Alternative splicing	AT5G20450_circ_g.2 AT5G20450_circ_g.3 5_circ_ag.4 5_circ_ag.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 5_circ_ag.9 5_circ_ag.10 5_circ_ag.11 AT5G20490_circ_g.1 AT5G20490_circ_g.2 AT5G20490_circ_g.3 AT5G20490_circ_g.4
Support reads	1/1/2
Tissues	seedling;root;flower
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	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	AT5G20450.1:8 AT5G20450.8:8 AT5G20450.10:8 AT5G20450.9:8 AT5G20450.3:8 AT5G20450.4:7 AT5G20450.12:8 AT5G20450.2:8 AT5G20450.7:7 AT5G20450.6:9 AT5G20450.5:9 AT5G20450.11:8

			
						 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  
						
							TGTATAAGTTGGGTACAAGAATGACAGACACTAATGAAGAGGGTTCTATGATAATGACCTGAAG
AATCCTAGTAACAGCCTCAGTAAAAGGTTCCAAGTCctatgccattttatgatggactgccttc
ttcacgactgagtaagaagctgagacttggtttctcgtggatcaattgagaaagctcaatgtca
tttacatc

									
								

					

						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
						
							CTATGCCATTTTATGATGGACTGCCTTCTTCACGACTGAGTAAGAAGCTGAGACTTGGTTTCTC
GTGGATCAATTGAGAAAGCTCAATGTCATTTACATCACTTGCTGCATTGATTTTGATAAATCCT
CCACCGCGAATGGGATGCTGTGTTTTGATTCATTGCCTAGCGTTAGTTACGGAAGCTTATTAAA
GAGATTTGACCACTAAATTTTTAGATTACCTCGAGTCCTCGGCCAAAAGGGACGAACCGGCATG
GTTCGAGTCCACCATGACTTTACTATTTTGTTAATTTTCTAACGGATCCTCAAACTTACATTGT
TTGCTTTCATTATATTTAGGTAACTTCTCAGGCTTCCCACAATACGTTGCCAATGAACAATCCG
TTCTTTTGGGTTTGAGAATGGCCATGGTGCCTGTATCATGTAAACATGTCTTATACACTATATT
GACAAGTAAATGACATCTAACCTAAATGAATCAGCGGATCTATAAATCGATAAACACAGACGTA
ATAAAGAAGACATTACCTGTTTACAATACTCAAGGTGAGGAAGGATCTCTTTCTTTAGATTATC
TCTCATCATTCCATAAATCTTCTGGAGGAAATCAATAAGCTGCTTCTTGAAAAGCATTGCAGGG
CACTTTGGTACGACTTGGCTTTGTCTATCCAGATAAGAGACTAGAACACCACTCATCAATCCCT
ATTTGGATTGTAAAGAAGACACAACATTATACAGGAATTGAAGCAAATAAATGTTAAGGAAGAT
AATATTTTTATATAAATTAGATTTGCAGCTTCTTACTTTGGACGATAGCATTGTAGAGCTTCTG
AATGTGCGTTGCAGTACGCAAACTAACATGGCTGAATTAGATAACCAATACGCCAAAACCTCGT
TATTATCTGAAACCTTGTAACTATCTGAAACCTGTAATGGAAGAAAACAGTTTTCATATTGATA
TTCAAAAACTTTTCAAAGTTTAGGTTTTTTAGAACATGTTGATTTAGTTGATAAATGTTTATGA
ACAATGAAGCAAGAAAGAATCAGCTTACTTCAATGGCGGAGGCTATTATTTTCACGATACGGTC
AAAGATGTTGGTTCTTTCGACTTCAAAAGATCTCCAGTGAAGGAGACATTTGTAAATGACACAT
GCAGCAACAGGCTTGCCTCCATCATATCCAAGGTTTTGTGAGATGCACTTCACTAGTACTTCCT
GGCTTTCCTGATTGACACCAAGCCAAAATTACATGAATAAATAAGTCTTTTTTTATTGACCTGG
GTGATGACATAGTGACGATACTAGCACAGAGCACTAGGTTAGTTGATTACCGATTCACAAAGCT
GATCTACTCTTCTTGTCACATTTTCAAGTTTTGTGGTCAGTTCCAAATTTCTAGCCTCTGCCAG
GGACAAAGCTTTTCTCAAGTCTTCTGCTGCTTGTTGTTCAGACTGGAGCGAAGCCTGTAATGAA
AAATGTTTTAAACTAACATATCCACTTCACAAATGGTGACATAGCGACGATACTAGCACAAAGC
ACTAGGTTAGATGATTACCGATTCACAAAGCTGATCTACTCTTCTTGTCACATTTTCAAGATTT
GTGGCCAGCTCCGAATTTCGAGCCTCTGCCTCTGAGAAAGCATTTCTCAAGTCTTCTGCTGCTT
GTCGTTCAGACTGAAGCGAAGCCTGAAATAAAAATATGATTTAAACAAACACATCCACTTCACA
ATATAAGTGGCCTAATCAACGTATATCTACTAACTTTTGATAGTGAATATATAAAAGGATGATC
TCATAAGTTAAAAACAGATACCTTTAGAGCTTCCACCTCTGATGTTAATGAATTGAATTTTTCA
GTATCCTCAGAATTCTCCTTAATGACTTGAGGAGCTTCTTCAATAGCTTTCCTTGCAGTCTCCT
GTTCTCTAATCACATCAGCTTTTGCTTCTTCAGCTAGCAAGCACATTGCGTGCAAAGCCTCCTG
TAGTTTTGCATATTCAAAAGCAACAACTTTTGCAAACGATTCAGGGTCTCTTAATGTATAAGTT
GGGTACAAGAATGACAGACACTAATGAAGAGGGTTCTATGATAATGACCTGAAGAATCCTAGTA
ACAGCCTCAGTAAAAGGTTCCAAGTC
						
					

			
		

Sequences
Splice junction sequence	TGTATAAGTTGGGTACAAGAATGACAGACACTAATGAAGAGGGTTCTATGATAATGACCTGAAG AATCCTAGTAACAGCCTCAGTAAAAGGTTCCAAGTCctatgccattttatgatggactgccttc ttcacgactgagtaagaagctgagacttggtttctcgtggatcaattgagaaagctcaatgtca tttacatc
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	CTATGCCATTTTATGATGGACTGCCTTCTTCACGACTGAGTAAGAAGCTGAGACTTGGTTTCTC GTGGATCAATTGAGAAAGCTCAATGTCATTTACATCACTTGCTGCATTGATTTTGATAAATCCT CCACCGCGAATGGGATGCTGTGTTTTGATTCATTGCCTAGCGTTAGTTACGGAAGCTTATTAAA GAGATTTGACCACTAAATTTTTAGATTACCTCGAGTCCTCGGCCAAAAGGGACGAACCGGCATG GTTCGAGTCCACCATGACTTTACTATTTTGTTAATTTTCTAACGGATCCTCAAACTTACATTGT TTGCTTTCATTATATTTAGGTAACTTCTCAGGCTTCCCACAATACGTTGCCAATGAACAATCCG TTCTTTTGGGTTTGAGAATGGCCATGGTGCCTGTATCATGTAAACATGTCTTATACACTATATT GACAAGTAAATGACATCTAACCTAAATGAATCAGCGGATCTATAAATCGATAAACACAGACGTA ATAAAGAAGACATTACCTGTTTACAATACTCAAGGTGAGGAAGGATCTCTTTCTTTAGATTATC TCTCATCATTCCATAAATCTTCTGGAGGAAATCAATAAGCTGCTTCTTGAAAAGCATTGCAGGG CACTTTGGTACGACTTGGCTTTGTCTATCCAGATAAGAGACTAGAACACCACTCATCAATCCCT ATTTGGATTGTAAAGAAGACACAACATTATACAGGAATTGAAGCAAATAAATGTTAAGGAAGAT AATATTTTTATATAAATTAGATTTGCAGCTTCTTACTTTGGACGATAGCATTGTAGAGCTTCTG AATGTGCGTTGCAGTACGCAAACTAACATGGCTGAATTAGATAACCAATACGCCAAAACCTCGT TATTATCTGAAACCTTGTAACTATCTGAAACCTGTAATGGAAGAAAACAGTTTTCATATTGATA TTCAAAAACTTTTCAAAGTTTAGGTTTTTTAGAACATGTTGATTTAGTTGATAAATGTTTATGA ACAATGAAGCAAGAAAGAATCAGCTTACTTCAATGGCGGAGGCTATTATTTTCACGATACGGTC AAAGATGTTGGTTCTTTCGACTTCAAAAGATCTCCAGTGAAGGAGACATTTGTAAATGACACAT GCAGCAACAGGCTTGCCTCCATCATATCCAAGGTTTTGTGAGATGCACTTCACTAGTACTTCCT GGCTTTCCTGATTGACACCAAGCCAAAATTACATGAATAAATAAGTCTTTTTTTATTGACCTGG GTGATGACATAGTGACGATACTAGCACAGAGCACTAGGTTAGTTGATTACCGATTCACAAAGCT GATCTACTCTTCTTGTCACATTTTCAAGTTTTGTGGTCAGTTCCAAATTTCTAGCCTCTGCCAG GGACAAAGCTTTTCTCAAGTCTTCTGCTGCTTGTTGTTCAGACTGGAGCGAAGCCTGTAATGAA AAATGTTTTAAACTAACATATCCACTTCACAAATGGTGACATAGCGACGATACTAGCACAAAGC ACTAGGTTAGATGATTACCGATTCACAAAGCTGATCTACTCTTCTTGTCACATTTTCAAGATTT GTGGCCAGCTCCGAATTTCGAGCCTCTGCCTCTGAGAAAGCATTTCTCAAGTCTTCTGCTGCTT GTCGTTCAGACTGAAGCGAAGCCTGAAATAAAAATATGATTTAAACAAACACATCCACTTCACA ATATAAGTGGCCTAATCAACGTATATCTACTAACTTTTGATAGTGAATATATAAAAGGATGATC TCATAAGTTAAAAACAGATACCTTTAGAGCTTCCACCTCTGATGTTAATGAATTGAATTTTTCA GTATCCTCAGAATTCTCCTTAATGACTTGAGGAGCTTCTTCAATAGCTTTCCTTGCAGTCTCCT GTTCTCTAATCACATCAGCTTTTGCTTCTTCAGCTAGCAAGCACATTGCGTGCAAAGCCTCCTG TAGTTTTGCATATTCAAAAGCAACAACTTTTGCAAACGATTCAGGGTCTCTTAATGTATAAGTT GGGTACAAGAATGACAGACACTAATGAAGAGGGTTCTATGATAATGACCTGAAGAATCCTAGTA ACAGCCTCAGTAAAAGGTTCCAAGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.173766818

Conservation Information
Conserved circRNAs	NA
PMCS	0.173766818

			
						 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 AT5G20450_circ_g.1

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