Plant Circular RNA Database

Detail information of GLYMA_16G101500_circ_g.4

			
						 General Information
					
						CircRNA Name
						GLYMA_16G101500_circ_g.4
					
						ID in PlantcircBase
						gma_circ_007323
					
						Alias
						gma-circRNA2209
					
						Organism
						
							Glycine max						
					
						Position
						
							chr16: 20382556-20383660  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_16G101500						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_16G101500_circ_g.3 GLYMA_16G101500_circ_g.5 						
					
						Support reads
						NA
					
						Tissues
						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  
						
							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
						KRH07651:2

General Information
CircRNA Name	GLYMA_16G101500_circ_g.4
ID in PlantcircBase	gma_circ_007323
Alias	gma-circRNA2209
Organism	Glycine max
Position	chr16: 20382556-20383660 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_16G101500
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_16G101500_circ_g.3 GLYMA_16G101500_circ_g.5
Support reads	NA
Tissues	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	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	KRH07651:2

			
						 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  
						
							ATATTTAAGGTAGTAGCAGGCTCACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTCCTCC
TGGATGATTATCCACCTTGATATTTTGAACTACTGGctataattagggtcccaatcaccaggat
caggcaaagaaatgcctgtctccgcattgtcatgaaccacttctgttgattgtgggttcatact
agcactgg

									
								

					

						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: 872
Transcript exons: 20382556-20383352,20383586-20383660
CTATAATTAGGGTCCCAATCACCAGGATCAGGCAAAGAAATGCCTGTCTCCGCATTGTCATGAA
CCACTTCTGTTGATTGTGGGTTCATACTAGCACTGGGCTTCATTAAGGATGAAATGTTCTGATT
AGCAGATAACCCTCCACTTCCTCGCTGCTTCCAGTTTCCAGGATTACTATTTGACTGTAGGTAT
GATGGTGAACTGCCAAGAGCTTGTGATGTTCCCTCAGTATGGCTTGTGCTGTCAGGATATTGAC
CTGGCCAATGTGAAGAAAATGTTTCTTGAGTTTGAGGACTTCCAGAATGTCCCCAATTTTTTCT
TCTATTAAACTGGCTAACTGCAGCTGTCTTGCCTAAAGGTGATCCGTGAGAAGTTCCTCTTGCA
GGAGATGTAGGTCCATAGTGTCCTGGAGAACTGACTGAAACCTGACTATAGGAACTTGGTGGAG
TAAATTGAGATGGGCTGGCACCAAGGGGCAGGGGAGCAAAATTTCCAGCTGACGGACTTATCCC
CAGCCCATTCCCAGGTTGGTACTTAACTCTCCTCCTTGCATCCGGACTATTCCCAAGCATTGAC
ATACTTCCCTGATTGTGCATGTTCATACCAGATGGACCAATAGGTGAATAGTAAGCAAACATGT
TACTGCTCTCTCCGTAACTTCCATAGCTGCTTCCAAGCCCAACACTATCATTATAGCTCCCATG
ACTTCCTACACTGCCATAACTATTGGCAGGCGGATGTTGAACCATCTGAAAATGTGGACTGCTA
TAAAGGGAAGCTCTGCTTTTGCCTGAAACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTC
CTCCTGGATGATTATCCACCTTGATATTTTGAACTACTGG
						
					

						Genomic sequence
						
							CTATAATTAGGGTCCCAATCACCAGGATCAGGCAAAGAAATGCCTGTCTCCGCATTGTCATGAA
CCACTTCTGTTGATTGTGGGTTCATACTAGCACTGGGCTTCATTAAGGATGAAATGTTCTGATT
AGCAGATAACCCTCCACTTCCTCGCTGCTTCCAGTTTCCAGGATTACTATTTGACTGTAGGTAT
GATGGTGAACTGCCAAGAGCTTGTGATGTTCCCTCAGTATGGCTTGTGCTGTCAGGATATTGAC
CTGGCCAATGTGAAGAAAATGTTTCTTGAGTTTGAGGACTTCCAGAATGTCCCCAATTTTTTCT
TCTATTAAACTGGCTAACTGCAGCTGTCTTGCCTAAAGGTGATCCGTGAGAAGTTCCTCTTGCA
GGAGATGTAGGTCCATAGTGTCCTGGAGAACTGACTGAAACCTGACTATAGGAACTTGGTGGAG
TAAATTGAGATGGGCTGGCACCAAGGGGCAGGGGAGCAAAATTTCCAGCTGACGGACTTATCCC
CAGCCCATTCCCAGGTTGGTACTTAACTCTCCTCCTTGCATCCGGACTATTCCCAAGCATTGAC
ATACTTCCCTGATTGTGCATGTTCATACCAGATGGACCAATAGGTGAATAGTAAGCAAACATGT
TACTGCTCTCTCCGTAACTTCCATAGCTGCTTCCAAGCCCAACACTATCATTATAGCTCCCATG
ACTTCCTACACTGCCATAACTATTGGCAGGCGGATGTTGAACCATCTGAAAATGTGGACTGCTA
TAAAGGGAAGCTCTGCTTTTGCCTGAAACCTGCAGGAACAAAATATAGTCAAGTGGGAACAAAA
TAGGGGGAAGCTCTTCTTTTTGAATCCAGTTTGAGATGAGGTCTTGAGCCCATCTAGTGTACAA
GGTTATTTTCTCTTTGAAAACTTTTTATCATTATTTTCATGTCAATCAGAAGTTAAGAAAGTTA
TCATAAATGTATCCAACTTCACTACTTGAGAAGATAAAGACAGTAATATTTAAGGTAGTAGCAG
GCTCACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTCCTCCTGGATGATTATCCACCTTG
ATATTTTGAACTACTGG
						
					

			
		

Sequences
Splice junction sequence	ATATTTAAGGTAGTAGCAGGCTCACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTCCTCC TGGATGATTATCCACCTTGATATTTTGAACTACTGGctataattagggtcccaatcaccaggat caggcaaagaaatgcctgtctccgcattgtcatgaaccacttctgttgattgtgggttcatact agcactgg
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: 872 Transcript exons: 20382556-20383352,20383586-20383660 CTATAATTAGGGTCCCAATCACCAGGATCAGGCAAAGAAATGCCTGTCTCCGCATTGTCATGAA CCACTTCTGTTGATTGTGGGTTCATACTAGCACTGGGCTTCATTAAGGATGAAATGTTCTGATT AGCAGATAACCCTCCACTTCCTCGCTGCTTCCAGTTTCCAGGATTACTATTTGACTGTAGGTAT GATGGTGAACTGCCAAGAGCTTGTGATGTTCCCTCAGTATGGCTTGTGCTGTCAGGATATTGAC CTGGCCAATGTGAAGAAAATGTTTCTTGAGTTTGAGGACTTCCAGAATGTCCCCAATTTTTTCT TCTATTAAACTGGCTAACTGCAGCTGTCTTGCCTAAAGGTGATCCGTGAGAAGTTCCTCTTGCA GGAGATGTAGGTCCATAGTGTCCTGGAGAACTGACTGAAACCTGACTATAGGAACTTGGTGGAG TAAATTGAGATGGGCTGGCACCAAGGGGCAGGGGAGCAAAATTTCCAGCTGACGGACTTATCCC CAGCCCATTCCCAGGTTGGTACTTAACTCTCCTCCTTGCATCCGGACTATTCCCAAGCATTGAC ATACTTCCCTGATTGTGCATGTTCATACCAGATGGACCAATAGGTGAATAGTAAGCAAACATGT TACTGCTCTCTCCGTAACTTCCATAGCTGCTTCCAAGCCCAACACTATCATTATAGCTCCCATG ACTTCCTACACTGCCATAACTATTGGCAGGCGGATGTTGAACCATCTGAAAATGTGGACTGCTA TAAAGGGAAGCTCTGCTTTTGCCTGAAACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTC CTCCTGGATGATTATCCACCTTGATATTTTGAACTACTGG
Genomic sequence	CTATAATTAGGGTCCCAATCACCAGGATCAGGCAAAGAAATGCCTGTCTCCGCATTGTCATGAA CCACTTCTGTTGATTGTGGGTTCATACTAGCACTGGGCTTCATTAAGGATGAAATGTTCTGATT AGCAGATAACCCTCCACTTCCTCGCTGCTTCCAGTTTCCAGGATTACTATTTGACTGTAGGTAT GATGGTGAACTGCCAAGAGCTTGTGATGTTCCCTCAGTATGGCTTGTGCTGTCAGGATATTGAC CTGGCCAATGTGAAGAAAATGTTTCTTGAGTTTGAGGACTTCCAGAATGTCCCCAATTTTTTCT TCTATTAAACTGGCTAACTGCAGCTGTCTTGCCTAAAGGTGATCCGTGAGAAGTTCCTCTTGCA GGAGATGTAGGTCCATAGTGTCCTGGAGAACTGACTGAAACCTGACTATAGGAACTTGGTGGAG TAAATTGAGATGGGCTGGCACCAAGGGGCAGGGGAGCAAAATTTCCAGCTGACGGACTTATCCC CAGCCCATTCCCAGGTTGGTACTTAACTCTCCTCCTTGCATCCGGACTATTCCCAAGCATTGAC ATACTTCCCTGATTGTGCATGTTCATACCAGATGGACCAATAGGTGAATAGTAAGCAAACATGT TACTGCTCTCTCCGTAACTTCCATAGCTGCTTCCAAGCCCAACACTATCATTATAGCTCCCATG ACTTCCTACACTGCCATAACTATTGGCAGGCGGATGTTGAACCATCTGAAAATGTGGACTGCTA TAAAGGGAAGCTCTGCTTTTGCCTGAAACCTGCAGGAACAAAATATAGTCAAGTGGGAACAAAA TAGGGGGAAGCTCTTCTTTTTGAATCCAGTTTGAGATGAGGTCTTGAGCCCATCTAGTGTACAA GGTTATTTTCTCTTTGAAAACTTTTTATCATTATTTTCATGTCAATCAGAAGTTAAGAAAGTTA TCATAAATGTATCCAACTTCACTACTTGAGAAGATAAAGACAGTAATATTTAAGGTAGTAGCAG GCTCACATTAGGTGATAGACCAGCGGCAAACCAGTGTCCTCCTCCTGGATGATTATCCACCTTG ATATTTTGAACTACTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.54778204

Conservation Information
Conserved circRNAs	NA
PMCS	0.54778204

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20383306-20383656(-)
20382618-20383634(-)
						
						Potential amino acid sequence
						
							MVQHPPANSYGSVGSHGSYNDSVGLGSSYGSYGESSNMFAYYSPIGPSGMNMHNQGSMSMLGNS
PDARRRVKYQPGNGLGISPSAGNFAPLPLGASPSQFTPPSSYSQVSVSSPGHYGPTSPARGTSH
GSPLGKTAAVSQFNRRKNWGHSGSPQTQETFSSHWPGQYPDSTSHTEGTSQALGSSPSYLQSNS
NPGNWKQRGSGGLSANQNISSLMKPSASMNPQSTEVVHDNAETGISLPDPGDWDPNYSQ*(-)
MTMRRQAFLCLILVIGTLIIASSSKYQGG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20383306-20383656(-) 20382618-20383634(-)
Potential amino acid sequence	MVQHPPANSYGSVGSHGSYNDSVGLGSSYGSYGESSNMFAYYSPIGPSGMNMHNQGSMSMLGNS PDARRRVKYQPGNGLGISPSAGNFAPLPLGASPSQFTPPSSYSQVSVSSPGHYGPTSPARGTSH GSPLGKTAAVSQFNRRKNWGHSGSPQTQETFSSHWPGQYPDSTSHTEGTSQALGSSPSYLQSNS NPGNWKQRGSGGLSANQNISSLMKPSASMNPQSTEVVHDNAETGISLPDPGDWDPNYSQ(-) MTMRRQAFLCLILVIGTLIIASSSKYQGG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_16G101500_circ_g.4

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