Plant Circular RNA Database

Detail information of GLYMA_08G114000_circ_ag.1

			
						 General Information
					
						CircRNA Name
						GLYMA_08G114000_circ_ag.1
					
						ID in PlantcircBase
						gma_circ_001984
					
						Alias
						Gm08ciRNA2158
					
						Organism
						
							Glycine max						
					
						Position
						
							chr8: 8738620-8741553  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						Tophat
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							GLYMA_08G114100_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						root, stem
					
						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-GG							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	GLYMA_08G114000_circ_ag.1
ID in PlantcircBase	gma_circ_001984
Alias	Gm08ciRNA2158
Organism	Glycine max
Position	chr8: 8738620-8741553 JBrowse»
Reference genome	v2.0.38
Type	ag-circRNA
Identification method	Tophat
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	GLYMA_08G114100_circ_g.1
Support reads	NA
Tissues	root, stem
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-GG 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  
						
							ATGCTTCAGACAAGAAGACCCGCCACTATCTCCCGAATGGTTTCAAGAAATTTGTTGTTCACAA
TGTGAAGGATTTGGAACTGCTCATGATGCACAACAGacttactgtgctgagattgcccacaata
tatccacaagaaagagaaaagatatagtcgagagagccgcgcagcttgatgttgttgtgacaaa
caaaacgg

									
								

					

						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
						
							ACTTACTGTGCTGAGATTGCCCACAATATATCCACAAGAAAGAGAAAAGATATAGTCGAGAGAG
CCGCGCAGCTTGATGTTGTTGTGACAAACAAAACGGCCAGATTACGCAGCCAGGAGGATGAATA
GTCTAAATGACTGAAAAAGTCACTTATCTGTAGTGATTCTGTAGTTCAATATCGAAGTTGCAGT
TTAATTTTAAATTGAATTTTGCTTCAGTGTATTTTGCTTCAGTGTATTTTGCTTATTGGGAACC
AGGTTTTTGATGTGCCTCTTTCATGTAAGTCGTATCTTGATTTGTTTTTAGGAACAAAAATATA
CGAAACCTTAATCTTTGGCTGTGTGATAACGTTGATGAGTTTTTTTTGGGGGTCCTTTTGATAA
TTTTTCAAACACTTATGAGAAGAAAAGGTTAAACATGATTAATTTTGAATTTTTCAAACACATT
TAAGATATATAGTTAAATTACCTCAATTACGTAATTTACAATATAATCACGTATATGGTATGGA
AAATTTGTTTTTATTGTAAAATAATTTTTTTTTTCTTATTAATCATTTCTTGAATATCAAGAGG
GTTTATTAAAATTATTTTATGGTATTTCGTGTATTTTTTTTTATCTGCTGAAAAGTTCAATTAA
TTGTTTTTTCAATTAATTATTTTTTAAATCGGTTTTTTTAGTAGTTTTAACGGTTTTTAAGTAG
TACTTTAAGTAATGTTTTTTTATTAGTTTTTAGTTTTTTATATATTTTTTTATTTGTCTTTAAT
CATTTATTAAATTTCTGTTTATTTTTTTATAAATAGATTATAATTTAATTATTTTATATTTTTC
AGTTTGATTTTATTAAATATTTATAATTTAATAAATTAATTTTTTAGTTTTTAGTTAACTTTTT
AATTAGTTTTGTTGAATATAGCCTAAAAAATAATATCAAGAAAGTCTAGTCAAAGTGATTGAGA
CATGGGTTAAGGATAAAAAAAATCATGTTTTTACTGTGCTTTATTTTTTTCATCATGGAAATGC
ACTTGACTAACAAAATCATGTTTATGCTTTTACTGTGCTTTATTTTTGTCACGGAGTGTAGACA
ATGAAATCTATGTTTCTAATGAAAGAGTATTTTTGGAGTACTGTTAAAGGGCATTCAGGTGAAT
AGTACTAATAACAAAAGTGGTAGTTCCAATAGTAACTCCCCCGGTTTGGCCCAACCCATTTGCA
CTTGCCTCTATCCAAAAAAACCCTAGACGCAGCAGCGCTTATATATACTGCTACTCTATTTCCT
CTCGGATCTCAGTCTCTACCTCAAACCACTCCAGAAAAAATGGCGGTGCCTCTTCTCTCGAAGA
AGATCGTGAAGAAGAGGCTGAAGAAGTTCAAGAGGCCTCAAAGTGACAGGAAGATTTCTGTGAA
GGTATCCATTCTACCTTTTTTCTTTCTGCTTAATTTACATGCACTTTTTTTTTTTATTCGAAGA
AAGTTAAGATGTGTTGTTTGGATGAGTAATTTTGTAATATTACACTGTGTTTGTACGGCATATG
GATGTTGAACTTCATGAACTTGTGTTTATTTTCTAATTTTTTGGCTTTAGTTAAGGATGTGATG
ATAGTATTTTGTCGCCCCAGTCTTAATTTGCACCACTAGGTGTAAATATGGTGATTGACACTAT
AACTGATCCTGCTATTTTATATGCTCTATCTTGTATTTTTTGTCAATTTTATTTGAATTGGGTA
GTTTTTTGTTTTTAATTTCTTCTTGATGTCTCAATTATTATTTGGACCGATGGGATACAAGGTT
AATGTTTTAACACCCATTATTACTATATATGTTTATACATGGTGAAAGACAGACTATCGGATCC
CATATATCATACATGAATTAAAGTTGTGTCTTGTTTTATGATGTTTTAATTGTTGTGTTTGCTA
GGGTTTTCCTTTTTTTTTAATTTTAATTTGAATATGGGATTTGATGACAACTTTTTGACACCCA
GTCTTACTTGCTCCATTGGGGGTACTCTGGTGAGAGTTTAGTTGTCTGATCTCTTGAATGGCTG
CCTAGCAATTTCTTGTCATTGTCCCATTGATTTCTATGACTTGGAAACAAAGCTATTTAACTGA
ACAAATTTCCCCTTAAATTTGTTATTTCTACATTATGAAATGTAATTGCAAAGACAAGATATGA
TGATGTTTATCCATCAATTCTGCAATTGAATGATGATTACTAACATGCACTACCATCTGATCCC
TTGCATCTTTTTTCATATGTCATTGTTGTTGAGTAGTCTTGTTTGACTAATTATTAGTGATTAC
TGCAATTTAGGTTTTCGTTTTTTAATTATTATTTGCCCATGGTATCTGATATCCTGAGTTCGGA
CTTTTGTCTTGTTATAGCTGGATATCTCGTTTTAAGGGCATATATAAAATTCTTACAGGCCTTG
CGACACAGATGGCTTTCTTTGCTATAAGCCTTCTGTTACTATTTTCCTGTTTAAATCTCTTCAA
TATATTGTTATTTGTCTTCTAAAACGTTTTCATCTAATAATACTTTTTACTATACCAGAAAATT
GTTTGATCTGCAATCTGTGATGACATTTCAATAATGTGCTGAGTTTCTGTGATTATTATCCCAA
ATATCACCATCTTTCGGCTGAGATTGCAGTTCAAATTATTAATCTAGTTTATGAAATTATTAAT
CTGGTGTGGATAAACAAAGTTCATATTTTCTGACCTGAACTTTTTGATAATACTATTTCAACAG
ACAAACTGGCGCAGACCAAAGGGTATCGATTCCCGTGTTAGGAGAAAGTTCAAGGGATGCACTT
TGATGCCGAACATTGGTTATGCTTCAGACAAGAAGACCCGCCACTATCTCCCGAATGGTTTCAA
GAAATTTGTTGTTCACAATGTGAAGGATTTGGAACTGCTCATGATGCACAACAG
						
					

			
		

Sequences
Splice junction sequence	ATGCTTCAGACAAGAAGACCCGCCACTATCTCCCGAATGGTTTCAAGAAATTTGTTGTTCACAA TGTGAAGGATTTGGAACTGCTCATGATGCACAACAGacttactgtgctgagattgcccacaata tatccacaagaaagagaaaagatatagtcgagagagccgcgcagcttgatgttgttgtgacaaa caaaacgg
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	ACTTACTGTGCTGAGATTGCCCACAATATATCCACAAGAAAGAGAAAAGATATAGTCGAGAGAG CCGCGCAGCTTGATGTTGTTGTGACAAACAAAACGGCCAGATTACGCAGCCAGGAGGATGAATA GTCTAAATGACTGAAAAAGTCACTTATCTGTAGTGATTCTGTAGTTCAATATCGAAGTTGCAGT TTAATTTTAAATTGAATTTTGCTTCAGTGTATTTTGCTTCAGTGTATTTTGCTTATTGGGAACC AGGTTTTTGATGTGCCTCTTTCATGTAAGTCGTATCTTGATTTGTTTTTAGGAACAAAAATATA CGAAACCTTAATCTTTGGCTGTGTGATAACGTTGATGAGTTTTTTTTGGGGGTCCTTTTGATAA TTTTTCAAACACTTATGAGAAGAAAAGGTTAAACATGATTAATTTTGAATTTTTCAAACACATT TAAGATATATAGTTAAATTACCTCAATTACGTAATTTACAATATAATCACGTATATGGTATGGA AAATTTGTTTTTATTGTAAAATAATTTTTTTTTTCTTATTAATCATTTCTTGAATATCAAGAGG GTTTATTAAAATTATTTTATGGTATTTCGTGTATTTTTTTTTATCTGCTGAAAAGTTCAATTAA TTGTTTTTTCAATTAATTATTTTTTAAATCGGTTTTTTTAGTAGTTTTAACGGTTTTTAAGTAG TACTTTAAGTAATGTTTTTTTATTAGTTTTTAGTTTTTTATATATTTTTTTATTTGTCTTTAAT CATTTATTAAATTTCTGTTTATTTTTTTATAAATAGATTATAATTTAATTATTTTATATTTTTC AGTTTGATTTTATTAAATATTTATAATTTAATAAATTAATTTTTTAGTTTTTAGTTAACTTTTT AATTAGTTTTGTTGAATATAGCCTAAAAAATAATATCAAGAAAGTCTAGTCAAAGTGATTGAGA CATGGGTTAAGGATAAAAAAAATCATGTTTTTACTGTGCTTTATTTTTTTCATCATGGAAATGC ACTTGACTAACAAAATCATGTTTATGCTTTTACTGTGCTTTATTTTTGTCACGGAGTGTAGACA ATGAAATCTATGTTTCTAATGAAAGAGTATTTTTGGAGTACTGTTAAAGGGCATTCAGGTGAAT AGTACTAATAACAAAAGTGGTAGTTCCAATAGTAACTCCCCCGGTTTGGCCCAACCCATTTGCA CTTGCCTCTATCCAAAAAAACCCTAGACGCAGCAGCGCTTATATATACTGCTACTCTATTTCCT CTCGGATCTCAGTCTCTACCTCAAACCACTCCAGAAAAAATGGCGGTGCCTCTTCTCTCGAAGA AGATCGTGAAGAAGAGGCTGAAGAAGTTCAAGAGGCCTCAAAGTGACAGGAAGATTTCTGTGAA GGTATCCATTCTACCTTTTTTCTTTCTGCTTAATTTACATGCACTTTTTTTTTTTATTCGAAGA AAGTTAAGATGTGTTGTTTGGATGAGTAATTTTGTAATATTACACTGTGTTTGTACGGCATATG GATGTTGAACTTCATGAACTTGTGTTTATTTTCTAATTTTTTGGCTTTAGTTAAGGATGTGATG ATAGTATTTTGTCGCCCCAGTCTTAATTTGCACCACTAGGTGTAAATATGGTGATTGACACTAT AACTGATCCTGCTATTTTATATGCTCTATCTTGTATTTTTTGTCAATTTTATTTGAATTGGGTA GTTTTTTGTTTTTAATTTCTTCTTGATGTCTCAATTATTATTTGGACCGATGGGATACAAGGTT AATGTTTTAACACCCATTATTACTATATATGTTTATACATGGTGAAAGACAGACTATCGGATCC CATATATCATACATGAATTAAAGTTGTGTCTTGTTTTATGATGTTTTAATTGTTGTGTTTGCTA GGGTTTTCCTTTTTTTTTAATTTTAATTTGAATATGGGATTTGATGACAACTTTTTGACACCCA GTCTTACTTGCTCCATTGGGGGTACTCTGGTGAGAGTTTAGTTGTCTGATCTCTTGAATGGCTG CCTAGCAATTTCTTGTCATTGTCCCATTGATTTCTATGACTTGGAAACAAAGCTATTTAACTGA ACAAATTTCCCCTTAAATTTGTTATTTCTACATTATGAAATGTAATTGCAAAGACAAGATATGA TGATGTTTATCCATCAATTCTGCAATTGAATGATGATTACTAACATGCACTACCATCTGATCCC TTGCATCTTTTTTCATATGTCATTGTTGTTGAGTAGTCTTGTTTGACTAATTATTAGTGATTAC TGCAATTTAGGTTTTCGTTTTTTAATTATTATTTGCCCATGGTATCTGATATCCTGAGTTCGGA CTTTTGTCTTGTTATAGCTGGATATCTCGTTTTAAGGGCATATATAAAATTCTTACAGGCCTTG CGACACAGATGGCTTTCTTTGCTATAAGCCTTCTGTTACTATTTTCCTGTTTAAATCTCTTCAA TATATTGTTATTTGTCTTCTAAAACGTTTTCATCTAATAATACTTTTTACTATACCAGAAAATT GTTTGATCTGCAATCTGTGATGACATTTCAATAATGTGCTGAGTTTCTGTGATTATTATCCCAA ATATCACCATCTTTCGGCTGAGATTGCAGTTCAAATTATTAATCTAGTTTATGAAATTATTAAT CTGGTGTGGATAAACAAAGTTCATATTTTCTGACCTGAACTTTTTGATAATACTATTTCAACAG ACAAACTGGCGCAGACCAAAGGGTATCGATTCCCGTGTTAGGAGAAAGTTCAAGGGATGCACTT TGATGCCGAACATTGGTTATGCTTCAGACAAGAAGACCCGCCACTATCTCCCGAATGGTTTCAA GAAATTTGTTGTTCACAATGTGAAGGATTTGGAACTGCTCATGATGCACAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.152917485

Conservation Information
Conserved circRNAs	NA
PMCS	0.152917485

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							gma-miR408d gma-miR862b 						
					
						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	gma-miR408d gma-miR862b
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_08G114000_circ_ag.1

Address

Any questions?

Supported by