Plant Circular RNA Database

Detail information of AT5G66050_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G66050_circ_g.1
					
						ID in PlantcircBase
						ath_circ_046089
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 26412458-26413838  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT5G66050						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g66050
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G66050_circ_g.2 AT5G66050_circ_g.3 						
					
						Support reads
						15/3
					
						Tissues
						root, inflorescences/seedlings
					
						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
						AT5G66050.3:8
AT5G66050.4:8
AT5G66050.2:8
AT5G66050.1:8

General Information
CircRNA Name	AT5G66050_circ_g.1
ID in PlantcircBase	ath_circ_046089
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 26412458-26413838 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT5G66050
Parent gene annotation	Putative uncharacterized protein At5g66050
Parent gene strand	-
Alternative splicing	AT5G66050_circ_g.2 AT5G66050_circ_g.3
Support reads	15/3
Tissues	root, inflorescences/seedlings
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	AT5G66050.3:8 AT5G66050.4:8 AT5G66050.2:8 AT5G66050.1:8

			
						 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  
						
							TCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAATCTTGCCGGA
AACCATGTCGCCGCATTTTGTAATGCATACTTGTCTctcgagttctgaaggttcttcagtctgt
ccctccacatcgctgcaaaatgtgatacaagaaaaaaatgaggagtctgcaaagcacactggat
atagatgc

									
								

					

						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: 686
Transcript exons: 26412458-26412497,26412593-26412670,26412760-26412866,26
413023-26413094,26413181-26413246,26413351-26413407,2641
3492-26413544,26413626-26413838
CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTTTCCTCTTTAGACGCCAAATCC
ATATTCCTCACTAATTTAAGCTCTTCCGATAAAGGATCTGGTCCATCGGGAGCGCTGTCAAGGA
TAACATTGAAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATTTTGATAGCCTCTTC
CAGCACTATTGCTTTGTTCACATATATTGGAGCCTGGCATGCTCTTGCAACATTGATGGCATCT
GATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTTGCCAAGACATAGACTTGCAT
AATAAGTGTTTACAATTCTACCTGTAAGTTTCACCATTTTAACTTCATATCCAAGTTTGTCGAC
AACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTCAGTGTGGCCTTGTAGTGGTACGTCT
AAAAGTTTCTCAACAGCAGCATCCCCAACAATAACAGGAAGCAAGTAGTCACCATCACAGGAGA
TCTTGAGAAAAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCAATAGGGAGAACACC
AACCCTGGATTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAA
TCTTGCCGGAAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT
Transcript length: 700
Transcript exons: 26412458-26412497,26412579-26412670,26412760-26412866,26
413023-26413094,26413181-26413246,26413351-26413407,2641
3492-26413544,26413626-26413838
CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTGCATCGATGTACCTTTCCTCTT
TAGACGCCAAATCCATATTCCTCACTAATTTAAGCTCTTCCGATAAAGGATCTGGTCCATCGGG
AGCGCTGTCAAGGATAACATTGAAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATT
TTGATAGCCTCTTCCAGCACTATTGCTTTGTTCACATATATTGGAGCCTGGCATGCTCTTGCAA
CATTGATGGCATCTGATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTTGCCAAG
ACATAGACTTGCATAATAAGTGTTTACAATTCTACCTGTAAGTTTCACCATTTTAACTTCATAT
CCAAGTTTGTCGACAACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTCAGTGTGGCCTT
GTAGTGGTACGTCTAAAAGTTTCTCAACAGCAGCATCCCCAACAATAACAGGAAGCAAGTAGTC
ACCATCACAGGAGATCTTGAGAAAAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCA
ATAGGGAGAACACCAACCCTGGATTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAG
TTTGCCACATTGAATCTTGCCGGAAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT
						
					

						Genomic sequence
						
							CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTGCAAAATGTGATACAAGAAAAA
AATGAGGAGTCTGCAAAGCACACTGGATATAGATGCCATCCAGAACAGTTTGTATACCTGCATC
GATGTACCTTTCCTCTTTAGACGCCAAATCCATATTCCTCACTAATTTAAGCTCTTCCGATAAA
GGATCTGGTCCATCGGGAGCGCTGAACAAGAACACCCACCATGTGGTTAGCAACTGTGACAGAG
TGAGACAGTGTAACTAACCCAGGAGATTCATTAACAAACTAAAAACCTGTCAAGGATAACATTG
AAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATTTTGATAGCCTCTTCCAGCACTA
TTGCTTTGTTCACATATATTGGAGCCTGAGATATGACAAACAAAAACATGTTATCGCAGTATTC
AAAAGGAACAGGTTAGGATTCCTCAGTTTGAGAAACAGAGAACCATAAAGATAGTGAGTTTAAC
CACATTTCGAAAGCAATAAATTGAGGAAAGCGTGTAACCCCCAGGTAGCATACCTGGCATGCTC
TTGCAACATTGATGGCATCTGATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTG
CATGACACATGGTTAACCTTAGACATAATGACTTTTGACAAAAAGTTTCCTAGCTAAGAGCATG
TTTGCAGTCTTTAAGTTACCTTGCCAAGACATAGACTTGCATAATAAGTGTTTACAATTCTACC
TGTAAGTTTCACCATTTTAACCTGTCAATAATACAGTACAGCTTATTAACTAAGTGGCAACCAG
CTATAAATGTTCTAATTCGAGGTAGAAGAGGCAACATGTGTGTTGGAAACGGATAGTTTACTTC
ATATCCAAGTTTGTCGACAACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTACAAGATA
GAAAGAAAAGAAGGTTAAGGGGTGGAATAGAAACAGCAATCGTCAAAAAAGTGTAAAACATGAA
GAGGGGATACCTCAGTGTGGCCTTGTAGTGGTACGTCTAAAAGTTTCTCAACAGCAGCATCCCC
TGCAAGTGTAAGCGATGAAAGTTAGCAACGCTAAGATACATAAGAAAGAGCAACGTGTAGAAAG
AATTGAGGTGCATTACCAACAATAACAGGAAGCAAGTAGTCACCATCACAGGAGATCTTGAGAA
AAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCAATAGGGAGAACACCAACCCTGGA
TTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAATCTTGCCGG
AAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT
						
					

			
		

Sequences
Splice junction sequence	TCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAATCTTGCCGGA AACCATGTCGCCGCATTTTGTAATGCATACTTGTCTctcgagttctgaaggttcttcagtctgt ccctccacatcgctgcaaaatgtgatacaagaaaaaaatgaggagtctgcaaagcacactggat atagatgc
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: 686 Transcript exons: 26412458-26412497,26412593-26412670,26412760-26412866,26 413023-26413094,26413181-26413246,26413351-26413407,2641 3492-26413544,26413626-26413838 CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTTTCCTCTTTAGACGCCAAATCC ATATTCCTCACTAATTTAAGCTCTTCCGATAAAGGATCTGGTCCATCGGGAGCGCTGTCAAGGA TAACATTGAAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATTTTGATAGCCTCTTC CAGCACTATTGCTTTGTTCACATATATTGGAGCCTGGCATGCTCTTGCAACATTGATGGCATCT GATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTTGCCAAGACATAGACTTGCAT AATAAGTGTTTACAATTCTACCTGTAAGTTTCACCATTTTAACTTCATATCCAAGTTTGTCGAC AACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTCAGTGTGGCCTTGTAGTGGTACGTCT AAAAGTTTCTCAACAGCAGCATCCCCAACAATAACAGGAAGCAAGTAGTCACCATCACAGGAGA TCTTGAGAAAAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCAATAGGGAGAACACC AACCCTGGATTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAA TCTTGCCGGAAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT Transcript length: 700 Transcript exons: 26412458-26412497,26412579-26412670,26412760-26412866,26 413023-26413094,26413181-26413246,26413351-26413407,2641 3492-26413544,26413626-26413838 CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTGCATCGATGTACCTTTCCTCTT TAGACGCCAAATCCATATTCCTCACTAATTTAAGCTCTTCCGATAAAGGATCTGGTCCATCGGG AGCGCTGTCAAGGATAACATTGAAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATT TTGATAGCCTCTTCCAGCACTATTGCTTTGTTCACATATATTGGAGCCTGGCATGCTCTTGCAA CATTGATGGCATCTGATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTTGCCAAG ACATAGACTTGCATAATAAGTGTTTACAATTCTACCTGTAAGTTTCACCATTTTAACTTCATAT CCAAGTTTGTCGACAACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTCAGTGTGGCCTT GTAGTGGTACGTCTAAAAGTTTCTCAACAGCAGCATCCCCAACAATAACAGGAAGCAAGTAGTC ACCATCACAGGAGATCTTGAGAAAAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCA ATAGGGAGAACACCAACCCTGGATTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAG TTTGCCACATTGAATCTTGCCGGAAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT
Genomic sequence	CTCGAGTTCTGAAGGTTCTTCAGTCTGTCCCTCCACATCGCTGCAAAATGTGATACAAGAAAAA AATGAGGAGTCTGCAAAGCACACTGGATATAGATGCCATCCAGAACAGTTTGTATACCTGCATC GATGTACCTTTCCTCTTTAGACGCCAAATCCATATTCCTCACTAATTTAAGCTCTTCCGATAAA GGATCTGGTCCATCGGGAGCGCTGAACAAGAACACCCACCATGTGGTTAGCAACTGTGACAGAG TGAGACAGTGTAACTAACCCAGGAGATTCATTAACAAACTAAAAACCTGTCAAGGATAACATTG AAAACAGGCTTTGCGCTCTGCGGTCTGCCTCCATAACCAATTTTGATAGCCTCTTCCAGCACTA TTGCTTTGTTCACATATATTGGAGCCTGAGATATGACAAACAAAAACATGTTATCGCAGTATTC AAAAGGAACAGGTTAGGATTCCTCAGTTTGAGAAACAGAGAACCATAAAGATAGTGAGTTTAAC CACATTTCGAAAGCAATAAATTGAGGAAAGCGTGTAACCCCCAGGTAGCATACCTGGCATGCTC TTGCAACATTGATGGCATCTGATGGCCGTGAATCAATGCATATAGCCTCAATGTCCCCAGGCTG CATGACACATGGTTAACCTTAGACATAATGACTTTTGACAAAAAGTTTCCTAGCTAAGAGCATG TTTGCAGTCTTTAAGTTACCTTGCCAAGACATAGACTTGCATAATAAGTGTTTACAATTCTACC TGTAAGTTTCACCATTTTAACCTGTCAATAATACAGTACAGCTTATTAACTAAGTGGCAACCAG CTATAAATGTTCTAATTCGAGGTAGAAGAGGCAACATGTGTGTTGGAAACGGATAGTTTACTTC ATATCCAAGTTTGTCGACAACAGCAGACACGAACTGGAACTGATCAGGGCATTCCTACAAGATA GAAAGAAAAGAAGGTTAAGGGGTGGAATAGAAACAGCAATCGTCAAAAAAGTGTAAAACATGAA GAGGGGATACCTCAGTGTGGCCTTGTAGTGGTACGTCTAAAAGTTTCTCAACAGCAGCATCCCC TGCAAGTGTAAGCGATGAAAGTTAGCAACGCTAAGATACATAAGAAAGAGCAACGTGTAGAAAG AATTGAGGTGCATTACCAACAATAACAGGAAGCAAGTAGTCACCATCACAGGAGATCTTGAGAA AAATAGTGGGCTGCTTGAATTGACGGAGAAAGCCAAGTCCAATAGGGAGAACACCAACCCTGGA TTCACTAGCTCTAATAGAAAAGGGAGGCAAAGGCCTAGAAGTTTGCCACATTGAATCTTGCCGG AAACCATGTCGCCGCATTTTGTAATGCATACTTGTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.178483299

Conservation Information
Conserved circRNAs	NA
PMCS	0.178483299

			
						 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;Pan et al., 2017

circRNA

Detail information of AT5G66050_circ_g.1

Address

Any questions?

Supported by