Plant Circular RNA Database

Detail information of GLYMA_18G255000_circ_g.3

			
						 General Information
					
						CircRNA Name
						GLYMA_18G255000_circ_g.3
					
						ID in PlantcircBase
						gma_circ_007571
					
						Alias
						gma-circRNA2518
					
						Organism
						
							Glycine max						
					
						Position
						
							chr18: 54149437-54152536  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_18G255000						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							GLYMA_18G255000_circ_g.4 						
					
						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  
						
							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
						KRH01116:4
KRH01117:4
KRH01115:4

General Information
CircRNA Name	GLYMA_18G255000_circ_g.3
ID in PlantcircBase	gma_circ_007571
Alias	gma-circRNA2518
Organism	Glycine max
Position	chr18: 54149437-54152536 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_18G255000
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	GLYMA_18G255000_circ_g.4
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	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	KRH01116:4 KRH01117:4 KRH01115:4

			
						 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  
						
							TTTGAGATGTTAACATTTACTTTCACATTACAGATATGATCTCTTGCATAATGCCCATCTTAAT
CTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAGgctcggctaaatgaaatcataacttcta
gttcaaagacaatctataacaatggatcacctgaattttcttggatggttgatggtgctggact
gccaccta

									
								

					

						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
						
							GCTCGGCTAAATGAAATCATAACTTCTAGTTCAAAGACAATCTATAACAATGGATCACCTGAAT
TTTCTTGGATGGTTGATGGTGCTGGACTGCCACCTAATGCGTCAGAATTGCTTCCCAAGTTGGT
AATGTTTTTTGTAAATATAGCAATGCATGATTGTATCATAACCCCTTCTACCATGGCATAATTC
TAGTATATAACTTTATTTTGGACTTGTACAGTAGATTCTACAATTTGTTGCCAGTAAATTAAAA
ATTGTCCACAAGAACTTATTGGTACATATTTTAGTAAAATAGTATACTCATTGTCAAAATATGC
GGAGATGGTGTGGTAGATGAGTTAAGAATGTCATGAATAATTAAAACATAAATAGGAGGATGAA
ATTCATTAGAATGGTGTTGTTTCTTTTGGCTAAAGATGTGGGATTAGTGCTTATATTTTGTTCA
TTTAAAACATACTCACATGGAACTCCTTCAATATGAGAAGCAAAAATCAAATAGTGATATAGAT
TGATTTTTTATTGTTAAACTTAAAATGCACAATAGCGCTTATTAAGATATCTTCTAATTGCCGA
TCAAAAAAAAAAAAAAAGATATCTTCTAATCAAACAAGCTGGTAGGAAACTCAGACCCAAGGGA
GCTCTAAAATGTGACAAAGCTGTCCAATCTAAAACAAAGCAAAGACTAAACTCAGACCCAAGGG
GATGATCAAATGGGAGAACCTTTCCCCTGTTTAATCTCTTTTAAAATAAAAAATAGAACCTCCC
CTAAGAAATCATGAGTAGGTCACTAAATATCATTAAATGTGATTTTGTTTCCCAAGTGTTTAAT
CTGTTTTCGTTTTTTGGTCATTTATGTGAACTTTTTAAGGTTAAAAGTATGTCAGAAAAAGTTG
ATTGAGTTGCAATTGTAAAATTTTGCTAAATTTCAAAATTGGTATGGTAGGCTTGTGTTCCTTT
TCAGAGATCATGTTGAGCTTTCGTTTATGTTCATACTATCTCATCCTTATCTACTGGGAACCTG
TTTGCCATTGTCTGAGCCCATTAATCTTGAAAGGATGGTGTTTTTGTCGGAAGTTATTTCTTCC
TAAATCTTTCTAGATTTTCAATACTGATAGAACATGAAACTATTTGTGTGAAATGGTACTAAAA
CTATTTTTGTATCTCAACTTCCACTGCATATCTCGTGAATAGGTAAGTTTGATTAAGAAGGTTA
CTGAACAAGTAAGACTGCTAGCCACCGATGAAGATGAGAAACTTGCAGAAAAGAGCTTATATGA
TGTAATTCCTCCTTATGACCAAGCAAAAGCACTTGGGAAGACAAATATCGATGTTGATCGTATA
GCTGCCGGATTACCTTGTGGTAGTGAAGGGTTTCTATTAATGTATGCTCGGTGGAAAAAGCTGG
AAAGGGACCTGTATAACGAACGCAAGGAGTAAGCATTTACATTTATTTTTTTGTTTATTCTTGT
TTTGTTTTATTGTATTTCCTTCTACATATTAGGAAACACAAATGTTACTTCAAATGCCATTGAC
ACATGAAAAAAGGTTTTAGTTACACAAAACGTACATAACGAAAGGCTGCCACATAGGAATTTTT
TAAAACTAGCTATTTGTGAAGTCAAAACTTATTGCGCCCCTGTAGTTTGCTCACTATTTGTATC
TTTCCTTGATTTGTGGATGAACTCAGTTTTTGAATTCATATATGTATTATTTAATCATCTCATC
TGAATTATTTTTCTTTTCTGTCCATTGTAATACAGTATGCTTTACTTTTACATTGTAGTTTGTA
GCTTCATGAACAAGTAAAAAAATGCTTTTGGTTGTAAAAATATTTAACTTTACTTAATTAAAAT
GATTTTTAATTTTCCCTGGTTTTTAAAGTTAGATTTTTAATCATACACAAAATCATGAATCCCA
AAGTTGCTCATGTATAGCTGTTGTGCTGGTGTAATGTATTGGCTGATGCACTGATGGTGTGTTA
CTTTCACAGGCGCTTTGACATCACCCAAATTCCTGATGTCTATGATTCATGCAAGTAAGTTATT
TATTTCCTTGGGTTTTTATGATGACTTAGTAAGACTTTTCCAGATCTACAATATTTGTGCAATC
ATGGAGATTGATTAGATAACTTGTGAGAATTTCTCATTCTGAGTGAAATTGCCATAAAAATTTA
CTGTCATAATTGTAAGTTTCCAGGAGCTTGTTTGTAGGTTTCAAGGGAATGTTATGTAATGTTG
ACTGTTGAGTTTCCTGGTAGATCTATTAGTGCTATACTTTTACTTTATCTTTCCTGTTCACTCT
TGGAAATTGTTTATATATCAAAAAACTAATATTTCAGCTCATTTGGCCTAAATGTAGCAAAAGT
TTTGAAAAGATGAAACCAAGTAAGAAAGAAGGAATATGATTTCATGCTATAAATTTTAAAGATG
AAGCTTTTACATTATCAAAGTTAAATTTTTAGTGTCACATTGTTAGGAAGAAACAACCAAGCAA
AGCATGAGTAACTGGAAGAAAAGGTACTTATAGCTAGATATTAAGAGATCTCATAGCCTGACTT
CCACTGAACTGTTCTGTTCGGCCAAGTTGTGTGAACTTCTTTTTTCTATAACCTTCTGGTTTTT
TTGCCTATAAATTCTCAGCTTTGATTAATTATTAAATTCTTGACTGATTGTCTCTATTTTCTTA
GTCTTCCTCGCCAATTTTACCCTACTGCCCATCTATTTTCTTCTTGTTTTCAATTGTCCCTCCA
TCCTGTTGTATGTGTGATGTGTCTCCAGAATATATGTAGATATTTGAGTTGTGACTACTGACTA
GTCATTAAGCTTTGGGAAACCCACTACAGCTATAACTGTTTGATGAAAATTTGCATGTTGAGCT
AGCTTCAGCCAAACCATTCAAACTCTTCTATGTTTCTGTGTGTATAATCTGCAACTTAATCAAT
ATGAAGAAAAAATTGGCAGTTTCATTTAAATTATGTAGCTTTTTTTATTCCTTTTGTTTGAGAT
GTTAACATTTACTTTCACATTACAGATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGG
ATTGGATGAGCTTTTCAAGGTTGCTCAG
						
					

			
		

Sequences
Splice junction sequence	TTTGAGATGTTAACATTTACTTTCACATTACAGATATGATCTCTTGCATAATGCCCATCTTAAT CTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAGgctcggctaaatgaaatcataacttcta gttcaaagacaatctataacaatggatcacctgaattttcttggatggttgatggtgctggact gccaccta
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	GCTCGGCTAAATGAAATCATAACTTCTAGTTCAAAGACAATCTATAACAATGGATCACCTGAAT TTTCTTGGATGGTTGATGGTGCTGGACTGCCACCTAATGCGTCAGAATTGCTTCCCAAGTTGGT AATGTTTTTTGTAAATATAGCAATGCATGATTGTATCATAACCCCTTCTACCATGGCATAATTC TAGTATATAACTTTATTTTGGACTTGTACAGTAGATTCTACAATTTGTTGCCAGTAAATTAAAA ATTGTCCACAAGAACTTATTGGTACATATTTTAGTAAAATAGTATACTCATTGTCAAAATATGC GGAGATGGTGTGGTAGATGAGTTAAGAATGTCATGAATAATTAAAACATAAATAGGAGGATGAA ATTCATTAGAATGGTGTTGTTTCTTTTGGCTAAAGATGTGGGATTAGTGCTTATATTTTGTTCA TTTAAAACATACTCACATGGAACTCCTTCAATATGAGAAGCAAAAATCAAATAGTGATATAGAT TGATTTTTTATTGTTAAACTTAAAATGCACAATAGCGCTTATTAAGATATCTTCTAATTGCCGA TCAAAAAAAAAAAAAAAGATATCTTCTAATCAAACAAGCTGGTAGGAAACTCAGACCCAAGGGA GCTCTAAAATGTGACAAAGCTGTCCAATCTAAAACAAAGCAAAGACTAAACTCAGACCCAAGGG GATGATCAAATGGGAGAACCTTTCCCCTGTTTAATCTCTTTTAAAATAAAAAATAGAACCTCCC CTAAGAAATCATGAGTAGGTCACTAAATATCATTAAATGTGATTTTGTTTCCCAAGTGTTTAAT CTGTTTTCGTTTTTTGGTCATTTATGTGAACTTTTTAAGGTTAAAAGTATGTCAGAAAAAGTTG ATTGAGTTGCAATTGTAAAATTTTGCTAAATTTCAAAATTGGTATGGTAGGCTTGTGTTCCTTT TCAGAGATCATGTTGAGCTTTCGTTTATGTTCATACTATCTCATCCTTATCTACTGGGAACCTG TTTGCCATTGTCTGAGCCCATTAATCTTGAAAGGATGGTGTTTTTGTCGGAAGTTATTTCTTCC TAAATCTTTCTAGATTTTCAATACTGATAGAACATGAAACTATTTGTGTGAAATGGTACTAAAA CTATTTTTGTATCTCAACTTCCACTGCATATCTCGTGAATAGGTAAGTTTGATTAAGAAGGTTA CTGAACAAGTAAGACTGCTAGCCACCGATGAAGATGAGAAACTTGCAGAAAAGAGCTTATATGA TGTAATTCCTCCTTATGACCAAGCAAAAGCACTTGGGAAGACAAATATCGATGTTGATCGTATA GCTGCCGGATTACCTTGTGGTAGTGAAGGGTTTCTATTAATGTATGCTCGGTGGAAAAAGCTGG AAAGGGACCTGTATAACGAACGCAAGGAGTAAGCATTTACATTTATTTTTTTGTTTATTCTTGT TTTGTTTTATTGTATTTCCTTCTACATATTAGGAAACACAAATGTTACTTCAAATGCCATTGAC ACATGAAAAAAGGTTTTAGTTACACAAAACGTACATAACGAAAGGCTGCCACATAGGAATTTTT TAAAACTAGCTATTTGTGAAGTCAAAACTTATTGCGCCCCTGTAGTTTGCTCACTATTTGTATC TTTCCTTGATTTGTGGATGAACTCAGTTTTTGAATTCATATATGTATTATTTAATCATCTCATC TGAATTATTTTTCTTTTCTGTCCATTGTAATACAGTATGCTTTACTTTTACATTGTAGTTTGTA GCTTCATGAACAAGTAAAAAAATGCTTTTGGTTGTAAAAATATTTAACTTTACTTAATTAAAAT GATTTTTAATTTTCCCTGGTTTTTAAAGTTAGATTTTTAATCATACACAAAATCATGAATCCCA AAGTTGCTCATGTATAGCTGTTGTGCTGGTGTAATGTATTGGCTGATGCACTGATGGTGTGTTA CTTTCACAGGCGCTTTGACATCACCCAAATTCCTGATGTCTATGATTCATGCAAGTAAGTTATT TATTTCCTTGGGTTTTTATGATGACTTAGTAAGACTTTTCCAGATCTACAATATTTGTGCAATC ATGGAGATTGATTAGATAACTTGTGAGAATTTCTCATTCTGAGTGAAATTGCCATAAAAATTTA CTGTCATAATTGTAAGTTTCCAGGAGCTTGTTTGTAGGTTTCAAGGGAATGTTATGTAATGTTG ACTGTTGAGTTTCCTGGTAGATCTATTAGTGCTATACTTTTACTTTATCTTTCCTGTTCACTCT TGGAAATTGTTTATATATCAAAAAACTAATATTTCAGCTCATTTGGCCTAAATGTAGCAAAAGT TTTGAAAAGATGAAACCAAGTAAGAAAGAAGGAATATGATTTCATGCTATAAATTTTAAAGATG AAGCTTTTACATTATCAAAGTTAAATTTTTAGTGTCACATTGTTAGGAAGAAACAACCAAGCAA AGCATGAGTAACTGGAAGAAAAGGTACTTATAGCTAGATATTAAGAGATCTCATAGCCTGACTT CCACTGAACTGTTCTGTTCGGCCAAGTTGTGTGAACTTCTTTTTTCTATAACCTTCTGGTTTTT TTGCCTATAAATTCTCAGCTTTGATTAATTATTAAATTCTTGACTGATTGTCTCTATTTTCTTA GTCTTCCTCGCCAATTTTACCCTACTGCCCATCTATTTTCTTCTTGTTTTCAATTGTCCCTCCA TCCTGTTGTATGTGTGATGTGTCTCCAGAATATATGTAGATATTTGAGTTGTGACTACTGACTA GTCATTAAGCTTTGGGAAACCCACTACAGCTATAACTGTTTGATGAAAATTTGCATGTTGAGCT AGCTTCAGCCAAACCATTCAAACTCTTCTATGTTTCTGTGTGTATAATCTGCAACTTAATCAAT ATGAAGAAAAAATTGGCAGTTTCATTTAAATTATGTAGCTTTTTTTATTCCTTTTGTTTGAGAT GTTAACATTTACTTTCACATTACAGATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGG ATTGGATGAGCTTTTCAAGGTTGCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.028399648

Conservation Information
Conserved circRNAs	NA
PMCS	0.028399648

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							54149510-54152533(+)
						
						Potential amino acid sequence
						
							MVDGAGLPPNASELLPKLVSLIKKVTEQVRLLATDEDEKLAEKSLYDVIPPYDQAKALGKTNID
VDRIAAGLPCGSEGFLLMYARWKKLERDLYNERKERFDITQIPDVYDSCKYDLLHNAHLNLEGL
DELFKVAQARLNEIITSSSKTIYNNGSPEFSWMVDGAGLPPNASELLPKLVSLIKKVTEQVRLL
ATDEDEKLAEKSLYDVIPPYDQAKALGKTNIDVDRIAAGLPCGSEGFLLMYARWKKLERDLYNE
RKERFDITQIPDVYDSCKYDLLHNAHLNLEGLDELFKVAQARLNEIITSSSKTIYNNGSPEFSW
MVDGAGLPPNASELLPKLVSLIKKVTEQVRLLATDEDEKLAEKSLYDVIPPYDQAKALGKTNID
VDRIAAGLPCGSEGFLLMYARWKKLERDLYNERKERFDITQIPDVYDSCKYDLLHNAHLNLEGL
DELFKVAQARLNEIITSSSKTIYNNGSPEFSWMVDGAGLPPNASELLPKLVSLIKKVTEQVRLL
ATDEDEKLAEKSLYDVIPPYDQAKALGKTNIDVDRIAAGLPCGSEGFLLMYARWKKLERDLYNE
RKERFDITQIPDVYDSCKYDLLHNAHLNLEGLDELFKVAQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						cytoplasmic male sterility (with protein-coding potential)

Functional Information
Coding potential	Y
Potential coding position	54149510-54152533(+)
Potential amino acid sequence	MVDGAGLPPNASELLPKLVSLIKKVTEQVRLLATDEDEKLAEKSLYDVIPPYDQAKALGKTNID VDRIAAGLPCGSEGFLLMYARWKKLERDLYNERKERFDITQIPDVYDSCKYDLLHNAHLNLEGL DELFKVAQARLNEIITSSSKTIYNNGSPEFSWMVDGAGLPPNASELLPKLVSLIKKVTEQVRLL ATDEDEKLAEKSLYDVIPPYDQAKALGKTNIDVDRIAAGLPCGSEGFLLMYARWKKLERDLYNE RKERFDITQIPDVYDSCKYDLLHNAHLNLEGLDELFKVAQARLNEIITSSSKTIYNNGSPEFSW MVDGAGLPPNASELLPKLVSLIKKVTEQVRLLATDEDEKLAEKSLYDVIPPYDQAKALGKTNID VDRIAAGLPCGSEGFLLMYARWKKLERDLYNERKERFDITQIPDVYDSCKYDLLHNAHLNLEGL DELFKVAQARLNEIITSSSKTIYNNGSPEFSWMVDGAGLPPNASELLPKLVSLIKKVTEQVRLL ATDEDEKLAEKSLYDVIPPYDQAKALGKTNIDVDRIAAGLPCGSEGFLLMYARWKKLERDLYNE RKERFDITQIPDVYDSCKYDLLHNAHLNLEGLDELFKVAQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	cytoplasmic male sterility (with protein-coding potential)

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_18G255000_circ_g.3

Address

Any questions?

Supported by