Plant Circular RNA Database

Detail information of GLYMA_08G187000_circ_g.2

			
						 General Information
					
						CircRNA Name
						GLYMA_08G187000_circ_g.2
					
						ID in PlantcircBase
						gma_circ_002065
					
						Alias
						Gm08circRNA969, gma-circRNA1046
					
						Organism
						
							Glycine max						
					
						Position
						
							chr8: 14980418-14982102  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI, find_circ
					
						Parent gene
						
							GLYMA_08G187000						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						root, stem, flower bud
					
						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  
						
							GT-AG							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
						KRH44051:7

General Information
CircRNA Name	GLYMA_08G187000_circ_g.2
ID in PlantcircBase	gma_circ_002065
Alias	Gm08circRNA969, gma-circRNA1046
Organism	Glycine max
Position	chr8: 14980418-14982102 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI, find_circ
Parent gene	GLYMA_08G187000
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	root, stem, flower bud
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	GT-AG 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	KRH44051:7

			
						 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  
						
							TGGTACTTAAAGAACTAGCATCATCCGAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGG
AGAATTGTGCAAAAATGGTCATGAACCAGCTTTGAActacttggaggagacactaagaatcttg
gttaaacactccagttatttccatgaagacgttagacttcaggctatcatttctttaaaacgta
aggggaaa

									
								

					

						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: 711
Transcript exons: 14980418-14980506,14980967-14981007,14981157-14981187,14
981279-14981401,14981480-14981697,14981769-14981864,1498
1990-14982102
CTACTTGGAGGAGACACTAAGAATCTTGGTTAAACACTCCAGTTATTTCCATGAAGACGTTAGA
CTTCAGGCTATCATTTCTTTAAAACATATTTTAACTGCGGCCCATGGAATCTTCCAAAGTCAAA
ATGAAGGGGCTGCTAAAGCAAAAGAACTTCTTGATACTGTGATGAATATTTACATCAAGACTAT
GGTTGAAGATGATGACAAGGAAGTGGTTGCTCAAGCATGCACTAGTGTGGCTGACATCATTAGA
GATTTTGGTTATGCAACTCTTGAGCCGTACTTGTCCCAGCTTGTTGATGCAACTTCATTGTTGC
TTCAGGAGAAATCTTCTTGTCAGCAGATAGAGTCAGACAGTGAAATTGATGATGTTGATAGTGC
ACACGATGAAGTGCTTATGGATGCAGTTTCAGATCTTCTCCCTGCATTTGCAAAGTCCATTGGT
GCTCAATTTGCTCCCATTTTTGCACAGCTATTTGAACCTCTAATGAAATTTGCAAAATCTTCTC
GTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTTGCTCAGAACATGGGTTT
TCCTATTGCAAGCTATGTTGATAGGGTGATGCCCTTGGTACTTAAAGAACTAGCATCATCCGAG
GCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAATTGTGCAAAAATGGTCATGAACCAG
CTTTGAA
						
					

						Genomic sequence
						
							CTACTTGGAGGAGACACTAAGAATCTTGGTTAAACACTCCAGTTATTTCCATGAAGACGTTAGA
CTTCAGGCTATCATTTCTTTAAAACGTAAGGGGAAACTACTTTCAGAATGTTGTTCTGTTCTTA
AAATTGTGCTTGTTTGTTTTTCCTATTCTCGTTTTCTGCAGTTTCCCTCATTTATGCATGGTAG
GAACATTGTACTTTTTTAAATAATTGTTTCTGGTTGGTTCTGTGCAAAATGCATCGTACCATGT
AGAATATTCATCTGAATGATGCTGATTAACATGCCCAAGAGTCCCATGATGATATATGAACCTA
TCAATCAAACCATATATTCATACAAAAGCAATGAGGAAAAGAGGGAAAAATATAATTCAGTGGA
AGTAAACTGCCTTTATTGTTTGAGTATGATAATTTATATGTTTTCTCCTGCAAATTTGTATACG
TGTCCTTCTACATTACTTGGGTTCTCAAATAAATACCTCAGTTTTTTTCATACATTTATATTGC
CATTGATTGCTGATTTGTTTTTTTATTTTAACTGCAGATATTTTAACTGCGGCCCATGGAATCT
TCCAAAGTCAAAATGTAAGTTTGTCCAATACCTCCTTGTTTTAACTTCACATTCTTACTTTTTC
ATAGATGGACTTCTTTTTATTTAATCATTTTGTTCTTAGTCCCATTCCCATCTTCTGTTTGATT
TTAACACCACAATTGACACTGGCTTTGTTTTTCAGGAAGGGGCTGCTAAAGCAAAAGAACTTCT
TGGTGAGAACATTTACTCTCTGATTTTGTATATGGTAATGATAAGACAGTTCATTTTATCTGTA
TAACCTATTGAGGCTGTTTGATTCCTCAGATACTGTGATGAATATTTACATCAAGACTATGGTT
GAAGATGATGACAAGGAAGTGGTTGCTCAAGCATGCACTAGTGTGGCTGACATCATTAGAGATT
TTGGTTATGCAACTCTTGAGCCGTGTAAGCATACAATTTTGACCTCTCATTTAAATTTATTTTG
CTGAGCTGATGCTAATGTGAGGTTTACTCTACTATCAGACTTGTCCCAGCTTGTTGATGCAACT
TCATTGTTGCTTCAGGAGAAATCTTCTTGTCAGCAGATAGAGTCAGACAGTGAAATTGATGATG
TTGATAGTGCACACGATGAAGTGCTTATGGATGCAGTTTCAGATCTTCTCCCTGCATTTGCAAA
GTCCATTGGTGCTCAATTTGCTCCCATTTTTGCACAGCTATTTGAACCTCTAATGAAATTTGCA
GTGAGTTCACAACCAATAACTTTTATTGTTAGGAATAAATCACAAATTAATATCCTCACTTTGA
AATGCAGAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTT
GCTCAGAACATGGGTTTTCCTATTGCAAGCTATGTTGATGTAATTTTGTTACACTTTTTCTTGA
TCTCTCTCTTACTTTTTCCTTTTGTGATTTCATTTTTCAATTAAAGTAGGAATTTTGACAATTG
TAATTGATTTGTAAAACGTGATATTATCTTTCTCAGAGGGTGATGCCCTTGGTACTTAAAGAAC
TAGCATCATCCGAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAATTGTGCAAAAA
TGGTCATGAACCAGCTTTGAA
						
					

			
		

Sequences
Splice junction sequence	TGGTACTTAAAGAACTAGCATCATCCGAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGG AGAATTGTGCAAAAATGGTCATGAACCAGCTTTGAActacttggaggagacactaagaatcttg gttaaacactccagttatttccatgaagacgttagacttcaggctatcatttctttaaaacgta aggggaaa
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: 711 Transcript exons: 14980418-14980506,14980967-14981007,14981157-14981187,14 981279-14981401,14981480-14981697,14981769-14981864,1498 1990-14982102 CTACTTGGAGGAGACACTAAGAATCTTGGTTAAACACTCCAGTTATTTCCATGAAGACGTTAGA CTTCAGGCTATCATTTCTTTAAAACATATTTTAACTGCGGCCCATGGAATCTTCCAAAGTCAAA ATGAAGGGGCTGCTAAAGCAAAAGAACTTCTTGATACTGTGATGAATATTTACATCAAGACTAT GGTTGAAGATGATGACAAGGAAGTGGTTGCTCAAGCATGCACTAGTGTGGCTGACATCATTAGA GATTTTGGTTATGCAACTCTTGAGCCGTACTTGTCCCAGCTTGTTGATGCAACTTCATTGTTGC TTCAGGAGAAATCTTCTTGTCAGCAGATAGAGTCAGACAGTGAAATTGATGATGTTGATAGTGC ACACGATGAAGTGCTTATGGATGCAGTTTCAGATCTTCTCCCTGCATTTGCAAAGTCCATTGGT GCTCAATTTGCTCCCATTTTTGCACAGCTATTTGAACCTCTAATGAAATTTGCAAAATCTTCTC GTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTTGCTCAGAACATGGGTTT TCCTATTGCAAGCTATGTTGATAGGGTGATGCCCTTGGTACTTAAAGAACTAGCATCATCCGAG GCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAATTGTGCAAAAATGGTCATGAACCAG CTTTGAA
Genomic sequence	CTACTTGGAGGAGACACTAAGAATCTTGGTTAAACACTCCAGTTATTTCCATGAAGACGTTAGA CTTCAGGCTATCATTTCTTTAAAACGTAAGGGGAAACTACTTTCAGAATGTTGTTCTGTTCTTA AAATTGTGCTTGTTTGTTTTTCCTATTCTCGTTTTCTGCAGTTTCCCTCATTTATGCATGGTAG GAACATTGTACTTTTTTAAATAATTGTTTCTGGTTGGTTCTGTGCAAAATGCATCGTACCATGT AGAATATTCATCTGAATGATGCTGATTAACATGCCCAAGAGTCCCATGATGATATATGAACCTA TCAATCAAACCATATATTCATACAAAAGCAATGAGGAAAAGAGGGAAAAATATAATTCAGTGGA AGTAAACTGCCTTTATTGTTTGAGTATGATAATTTATATGTTTTCTCCTGCAAATTTGTATACG TGTCCTTCTACATTACTTGGGTTCTCAAATAAATACCTCAGTTTTTTTCATACATTTATATTGC CATTGATTGCTGATTTGTTTTTTTATTTTAACTGCAGATATTTTAACTGCGGCCCATGGAATCT TCCAAAGTCAAAATGTAAGTTTGTCCAATACCTCCTTGTTTTAACTTCACATTCTTACTTTTTC ATAGATGGACTTCTTTTTATTTAATCATTTTGTTCTTAGTCCCATTCCCATCTTCTGTTTGATT TTAACACCACAATTGACACTGGCTTTGTTTTTCAGGAAGGGGCTGCTAAAGCAAAAGAACTTCT TGGTGAGAACATTTACTCTCTGATTTTGTATATGGTAATGATAAGACAGTTCATTTTATCTGTA TAACCTATTGAGGCTGTTTGATTCCTCAGATACTGTGATGAATATTTACATCAAGACTATGGTT GAAGATGATGACAAGGAAGTGGTTGCTCAAGCATGCACTAGTGTGGCTGACATCATTAGAGATT TTGGTTATGCAACTCTTGAGCCGTGTAAGCATACAATTTTGACCTCTCATTTAAATTTATTTTG CTGAGCTGATGCTAATGTGAGGTTTACTCTACTATCAGACTTGTCCCAGCTTGTTGATGCAACT TCATTGTTGCTTCAGGAGAAATCTTCTTGTCAGCAGATAGAGTCAGACAGTGAAATTGATGATG TTGATAGTGCACACGATGAAGTGCTTATGGATGCAGTTTCAGATCTTCTCCCTGCATTTGCAAA GTCCATTGGTGCTCAATTTGCTCCCATTTTTGCACAGCTATTTGAACCTCTAATGAAATTTGCA GTGAGTTCACAACCAATAACTTTTATTGTTAGGAATAAATCACAAATTAATATCCTCACTTTGA AATGCAGAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTT GCTCAGAACATGGGTTTTCCTATTGCAAGCTATGTTGATGTAATTTTGTTACACTTTTTCTTGA TCTCTCTCTTACTTTTTCCTTTTGTGATTTCATTTTTCAATTAAAGTAGGAATTTTGACAATTG TAATTGATTTGTAAAACGTGATATTATCTTTCTCAGAGGGTGATGCCCTTGGTACTTAAAGAAC TAGCATCATCCGAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAATTGTGCAAAAA TGGTCATGAACCAGCTTTGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							pop_circ_002808* csa_circ_001696* 						
					
						PMCS
						0.488629276

Conservation Information
Conserved circRNAs	pop_circ_002808* csa_circ_001696*
PMCS	0.488629276

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14981288-14982099(+)
						
						Potential amino acid sequence
						
							MNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSCQQIESDS
EIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRTMVVACLA
EVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAFCVGELCKNGHEPALNYLEETLRILVK
HSSYFHEDVRLQAIISLKHILTAAHGIFQSQNEGAAKAKELLDTVMNIYIKTMVEDDDKEVVAQ
ACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSCQQIESDSEIDDVDSAHDEVLMDAVSD
LLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRTMVVACLAEVAQNMGFPIASYVDRVMP
LVLKELASSEATNRRNAAFCVGELCKNGHEPALNYLEETLRILVKHSSYFHEDVRLQAIISLKH
ILTAAHGIFQSQNEGAAKAKELLDTVMNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEP
YLSQLVDATSLLLQEKSSCQQIESDSEIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQ
LFEPLMKFAKSSRPPQDRTMVVACLAEVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAF
CVGELCKNGHEPALNYLEETLRILVKHSSYFHEDVRLQAIISLKHILTAAHGIFQSQNEGAAKA
KELLDTVMNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSC
QQIESDSEIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRT
MVVACLAEVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAFCVGELCKNGHEPAL(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						playing a post-transcriptional regulatory role in soybean oil synthesis

Functional Information
Coding potential	Y
Potential coding position	14981288-14982099(+)
Potential amino acid sequence	MNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSCQQIESDS EIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRTMVVACLA EVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAFCVGELCKNGHEPALNYLEETLRILVK HSSYFHEDVRLQAIISLKHILTAAHGIFQSQNEGAAKAKELLDTVMNIYIKTMVEDDDKEVVAQ ACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSCQQIESDSEIDDVDSAHDEVLMDAVSD LLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRTMVVACLAEVAQNMGFPIASYVDRVMP LVLKELASSEATNRRNAAFCVGELCKNGHEPALNYLEETLRILVKHSSYFHEDVRLQAIISLKH ILTAAHGIFQSQNEGAAKAKELLDTVMNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEP YLSQLVDATSLLLQEKSSCQQIESDSEIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQ LFEPLMKFAKSSRPPQDRTMVVACLAEVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAF CVGELCKNGHEPALNYLEETLRILVKHSSYFHEDVRLQAIISLKHILTAAHGIFQSQNEGAAKA KELLDTVMNIYIKTMVEDDDKEVVAQACTSVADIIRDFGYATLEPYLSQLVDATSLLLQEKSSC QQIESDSEIDDVDSAHDEVLMDAVSDLLPAFAKSIGAQFAPIFAQLFEPLMKFAKSSRPPQDRT MVVACLAEVAQNMGFPIASYVDRVMPLVLKELASSEATNRRNAAFCVGELCKNGHEPAL(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	playing a post-transcriptional regulatory role in soybean oil synthesis

			
						 Other Information
					
						References
						Zhao et al., 2017a; Chen et al., 2018

circRNA

Detail information of GLYMA_08G187000_circ_g.2

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