Plant Circular RNA Database

Detail information of GLYMA_17G039000_circ_ag.4

			
						 General Information
					
						CircRNA Name
						GLYMA_17G039000_circ_ag.4
					
						ID in PlantcircBase
						gma_circ_009453
					
						Alias
						novel_circ_000312
					
						Organism
						
							Glycine max						
					
						Position
						
							chr17: 2893452-2897049  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							GLYMA_17G039000_circ_ag.1 GLYMA_17G039000_circ_ag.2 GLYMA_17G039000_circ_ag.3 GLYMA_17G039100_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						root
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	GLYMA_17G039000_circ_ag.4
ID in PlantcircBase	gma_circ_009453
Alias	novel_circ_000312
Organism	Glycine max
Position	chr17: 2893452-2897049 JBrowse»
Reference genome	v2.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	GLYMA_17G039000_circ_ag.1 GLYMA_17G039000_circ_ag.2 GLYMA_17G039000_circ_ag.3 GLYMA_17G039100_circ_g.1
Support reads	NA
Tissues	root
Exon boundary	NA-NA "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	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  
						
							GTGCTTTCTCCGGGAAGGACCCTACCAAGGTTGATAGGAGTGGTGCTTACATTGTGAGACAGGC
TGCTAAGAGCATTGTGGCAAGTGGACTTGCCAGAAGgtgcattgtgcaagtgtcttatgccatt
ggtgtgcctgagcctttgtctgtgtttgttgacacctatggcactggaaagatccctgacaagg
agatcctt

									
								

					

						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
						
							GTGCATTGTGCAAGTGTCTTATGCCATTGGTGTGCCTGAGCCTTTGTCTGTGTTTGTTGACACC
TATGGCACTGGAAAGATCCCTGACAAGGAGATCCTTAACATTGTGAAGGAGAACTTTGATTTCA
GGCCTGGTATGATCTCCATCAACCTTGATCTCAAGAGGGGTGGAAATAACAGGTTTTTGAAGAC
TGCTGCATATGGACACTTTGGAAGAGAGGACCCTGACTTCACATGGGAAGTGATCAAGCCACTC
AAGTGGGAGGAGGCCTAAGGCCATTCATTCCTCACCGCTGTGTGCTGGGAGTTTTTTGAGCTTT
GCCCTTATCATATCTATAATTTGTTTCATTTATTTTACTTAATTCGTGTGTGCTTCTCACTTTC
TCTTCCTCCTCTCCATTCTATTTTGTTTCTTCTATCCTCATATGTAATTTTTTTACATGATCAA
TTAAACGTGATACAAAATTATTCTTAATTAGCACGTGTCCTTGTTTCTAGTCCCTTTACTTTTG
AATGTCTATGTCTACACATACATATAGGACGTTTTACTTTTATATGTGTGTCAGCTTGGTTGGA
ATTCTGTGGTATCCGTTTATCAGTTAGTTCAGGTGCACACAAATGCGACAATTAGTTGGTAAAA
CTGCAAGAGATTTTGCAAATATCATACAAATAATAACAATAAATAGTTTGTCGTTTTCATGCTG
CTGGTTTGATCTTCGCAGTTCACACTGATCAAACTAAACAACGGTGTTTGGTAATATTCAACCT
TCTCTCTTTCAAACCTTACTACTAACCTCGTGCGTTGGGTAACATTAGGCTTCCAACTTATCTG
TTTTCTTTGCCATAACTTGTTGCCAAAGAGTGTTTGTTCATAATAAGTGTTGGAGATATAAGAG
TGTTGGAAAAGTTTATTTGCCATAACTTGTTGCCATAAAGAGTTGAAGTAACCTCTTGATAGGA
AAATGGCTCAAGACAAGCTGTGAATAGAAGTCAGAAAACAAGCAAATGAAGTAGAGTAAGTGGA
ATAAACAAAGTCCAATAGTTTAGTGAACTTATAATCATGTTGAGAATGAGAAGGATCCACCCTC
ACAAAAAAGGTTATTGCCTAATTAATAGTAGGGATTGAAGAAGTATCAATAATCAATAAGAGGG
ACATTTGGATTGACACAAACTATTAGTATAAAAAAAAAATGTAAAACTAAATGGACAACAATCT
AAGAAAGCGAGTATGTGTTGTACTCGGAAAACATAACATAATGTGATTTTGATTGTGGAAACTG
AAAACAATAACATTTAAGTTTTATTTATCTCTTTGCCTAACAATTTTTTTAATTACTTTTTTTA
TAGTTTTTATGATGAAGATAATTAATATTTTTTACAAATATTATATTTTCCTTTTTACCATCTT
TGAAGATAATTGCTTTTTTTTCCAATTTAGACAAATATTTGAGTATCAATGATATTCCTTTTTA
ATCCATTATTGCAATTTAAAAGACCATCAATGATTACATTTTCAATCAAATGACTTTATTAGTC
TTCACTTTACATCGATTTAAATCAAACTAATAATTTTGTATGGACTAAATCTCTGAACATTTTT
ATATTTACAACATATTTTAACATTTATTAAATAATTAGTATTTAATACTATTAGTAGAATAATG
GGAGTAGCAGGAGGGAGGCACTGAGAGAATAGAGATGGCATGGAAGTAAGCAATCAAGTCAAAA
TCAGAGTTGGCCAACCCCAAAGGCTGTAGTAGGTAAGCATGGCCCATTTTAGTTTTTACATTCA
TCTCTCATTTTCACCTCAACGGTTCAGATTCAATCTGACTCCCCGATCTCAGCCGTGGATTCAA
ATGCCACCTCAGGCACATGCAATTCCAAATGGATGAACCTAACCCACAATCTAATCTTGTTACT
TAGGGGCTTTTCCGTCATTAAATGACACCACCTACCCCCTTCTCCCTATAAATGGCAACTCAAT
GCCCCCCTTAGAACTCGCAGCGCTTGATTTGAGGCCAGGCAAGCCCCACTCAACCACCACACCT
CTCCTCGTTCACGCTACCCCTTTCTGCTCTTCTTCTACCTTTCAAGGTACTCTTCTTTCCCTCT
GTTGCTGCAACCTTCTCTTTCTTTAAGATTGCCTCAATTTCGGATCTTGCACCTCTGGGTTGCT
TTGCTTTGCTTTTTCCTCTACTGGGTTGATTTCTGTTTCCCTAAACCGGTTTAGACGAATGTGA
ACACTACTTCTTTTGTTTAATTACTCTGGAATACGTGTTAGGCTTTCAGATCTAGTTGAAATCG
TATTGCACTTTTAGGGGGAGTTTGGATTTCTAATAAGAAATTGACCTTTTGCTGAGAATTGGTT
CGGTGATTAGAGGGTTTCCGTAAATTTTTGAAGTTTTACATGCTTGTATCTGTTTATTTTTGTT
TCTCACATCTATTATTGTTAGGTGAAGGAAATTATGTATTGAGAGTCTGTCTGATACTAAATAT
AAACACCTCAATAGGGGCTCTAACACTGATTTTATCATTTGCTGCTTGTGTGTATGGTTAAAGA
AAGGCAATTGTGTTTTAATTTTCTGCAAGCTTTCGTTTGCTGAATTTTATGCATATATTTTCCT
CCCTTTTGTGAACTTCCTTTTTGTAGTTCTAATTCCATTTTTGGTGTCTGCAGTTTTAAAAGTA
TAAAGATGGCAGAGACATTCCTATTTACCTCAGAGTCGGTGAACGAGGGACACCCTGACAAGCT
CTGCGACCAAATCTCCGATGCTGTCCTCGACGCTTGCCTCGAGCAGGACCCAGACAGCAAAGTT
GCCTGCGAAACATGCACCAAAACCAACTTGGTCATGGTCTTCGGAGAAATCACGACCAAGGCCA
ACGTTGACTACGAGAAGATAGTGCGTGACACCTGCAGGAACATCGGCTTCGTCTCAAATGATGT
GGGACTGGATGCCGACAACTGCAAGGTCCTCGTCAACATTGAGCAGCAGAGCCCTGATATTGCT
CAGGGTGTACACGGCCACCTTACCAAAAAACCTGAAGAAATTGGTGCTGGTGACCAGGGTCACA
TGTTTGGCTATGCCACTGATGAAACCCCTGAATTGATGCCATTGAGCCATGTTCTTGCAACAAA
ACTCGGTGCTCGTCTCACCGAGGTTCGCAAGAACGGTACCTGCCCTTGGCTGAGGCCTGATGGG
AAGACCCAAGTGACCGTTGAGTATTACAATGACAATGGTGCCAGGGTTCCTATTCGTGTACACA
CCGTGCTAATCTCCACCCAACACGACGAGACTGTCACCAATGACGAAATTGCTGCTGACCTCAA
AGAGCATGTGATCAAGCCTGTGATCCCAGAGAAGTACCTTGATGAGAAGACCATTTTCCACTTG
AACCCTTCAGGCCGTTTTGTCATTGGTGGCCCTCATGGCGATGCTGGTCTCACCGGCCGCAAGA
TCATTATCGATACTTATGGAGGATGGGGTGCTCATGGTGGTGGTGCTTTCTCCGGGAAGGACCC
TACCAAGGTTGATAGGAGTGGTGCTTACATTGTGAGACAGGCTGCTAAGAGCATTGTGGCAAGT
GGACTTGCCAGAAG
						
					

			
		

Sequences
Splice junction sequence	GTGCTTTCTCCGGGAAGGACCCTACCAAGGTTGATAGGAGTGGTGCTTACATTGTGAGACAGGC TGCTAAGAGCATTGTGGCAAGTGGACTTGCCAGAAGgtgcattgtgcaagtgtcttatgccatt ggtgtgcctgagcctttgtctgtgtttgttgacacctatggcactggaaagatccctgacaagg agatcctt
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	GTGCATTGTGCAAGTGTCTTATGCCATTGGTGTGCCTGAGCCTTTGTCTGTGTTTGTTGACACC TATGGCACTGGAAAGATCCCTGACAAGGAGATCCTTAACATTGTGAAGGAGAACTTTGATTTCA GGCCTGGTATGATCTCCATCAACCTTGATCTCAAGAGGGGTGGAAATAACAGGTTTTTGAAGAC TGCTGCATATGGACACTTTGGAAGAGAGGACCCTGACTTCACATGGGAAGTGATCAAGCCACTC AAGTGGGAGGAGGCCTAAGGCCATTCATTCCTCACCGCTGTGTGCTGGGAGTTTTTTGAGCTTT GCCCTTATCATATCTATAATTTGTTTCATTTATTTTACTTAATTCGTGTGTGCTTCTCACTTTC TCTTCCTCCTCTCCATTCTATTTTGTTTCTTCTATCCTCATATGTAATTTTTTTACATGATCAA TTAAACGTGATACAAAATTATTCTTAATTAGCACGTGTCCTTGTTTCTAGTCCCTTTACTTTTG AATGTCTATGTCTACACATACATATAGGACGTTTTACTTTTATATGTGTGTCAGCTTGGTTGGA ATTCTGTGGTATCCGTTTATCAGTTAGTTCAGGTGCACACAAATGCGACAATTAGTTGGTAAAA CTGCAAGAGATTTTGCAAATATCATACAAATAATAACAATAAATAGTTTGTCGTTTTCATGCTG CTGGTTTGATCTTCGCAGTTCACACTGATCAAACTAAACAACGGTGTTTGGTAATATTCAACCT TCTCTCTTTCAAACCTTACTACTAACCTCGTGCGTTGGGTAACATTAGGCTTCCAACTTATCTG TTTTCTTTGCCATAACTTGTTGCCAAAGAGTGTTTGTTCATAATAAGTGTTGGAGATATAAGAG TGTTGGAAAAGTTTATTTGCCATAACTTGTTGCCATAAAGAGTTGAAGTAACCTCTTGATAGGA AAATGGCTCAAGACAAGCTGTGAATAGAAGTCAGAAAACAAGCAAATGAAGTAGAGTAAGTGGA ATAAACAAAGTCCAATAGTTTAGTGAACTTATAATCATGTTGAGAATGAGAAGGATCCACCCTC ACAAAAAAGGTTATTGCCTAATTAATAGTAGGGATTGAAGAAGTATCAATAATCAATAAGAGGG ACATTTGGATTGACACAAACTATTAGTATAAAAAAAAAATGTAAAACTAAATGGACAACAATCT AAGAAAGCGAGTATGTGTTGTACTCGGAAAACATAACATAATGTGATTTTGATTGTGGAAACTG AAAACAATAACATTTAAGTTTTATTTATCTCTTTGCCTAACAATTTTTTTAATTACTTTTTTTA TAGTTTTTATGATGAAGATAATTAATATTTTTTACAAATATTATATTTTCCTTTTTACCATCTT TGAAGATAATTGCTTTTTTTTCCAATTTAGACAAATATTTGAGTATCAATGATATTCCTTTTTA ATCCATTATTGCAATTTAAAAGACCATCAATGATTACATTTTCAATCAAATGACTTTATTAGTC TTCACTTTACATCGATTTAAATCAAACTAATAATTTTGTATGGACTAAATCTCTGAACATTTTT ATATTTACAACATATTTTAACATTTATTAAATAATTAGTATTTAATACTATTAGTAGAATAATG GGAGTAGCAGGAGGGAGGCACTGAGAGAATAGAGATGGCATGGAAGTAAGCAATCAAGTCAAAA TCAGAGTTGGCCAACCCCAAAGGCTGTAGTAGGTAAGCATGGCCCATTTTAGTTTTTACATTCA TCTCTCATTTTCACCTCAACGGTTCAGATTCAATCTGACTCCCCGATCTCAGCCGTGGATTCAA ATGCCACCTCAGGCACATGCAATTCCAAATGGATGAACCTAACCCACAATCTAATCTTGTTACT TAGGGGCTTTTCCGTCATTAAATGACACCACCTACCCCCTTCTCCCTATAAATGGCAACTCAAT GCCCCCCTTAGAACTCGCAGCGCTTGATTTGAGGCCAGGCAAGCCCCACTCAACCACCACACCT CTCCTCGTTCACGCTACCCCTTTCTGCTCTTCTTCTACCTTTCAAGGTACTCTTCTTTCCCTCT GTTGCTGCAACCTTCTCTTTCTTTAAGATTGCCTCAATTTCGGATCTTGCACCTCTGGGTTGCT TTGCTTTGCTTTTTCCTCTACTGGGTTGATTTCTGTTTCCCTAAACCGGTTTAGACGAATGTGA ACACTACTTCTTTTGTTTAATTACTCTGGAATACGTGTTAGGCTTTCAGATCTAGTTGAAATCG TATTGCACTTTTAGGGGGAGTTTGGATTTCTAATAAGAAATTGACCTTTTGCTGAGAATTGGTT CGGTGATTAGAGGGTTTCCGTAAATTTTTGAAGTTTTACATGCTTGTATCTGTTTATTTTTGTT TCTCACATCTATTATTGTTAGGTGAAGGAAATTATGTATTGAGAGTCTGTCTGATACTAAATAT AAACACCTCAATAGGGGCTCTAACACTGATTTTATCATTTGCTGCTTGTGTGTATGGTTAAAGA AAGGCAATTGTGTTTTAATTTTCTGCAAGCTTTCGTTTGCTGAATTTTATGCATATATTTTCCT CCCTTTTGTGAACTTCCTTTTTGTAGTTCTAATTCCATTTTTGGTGTCTGCAGTTTTAAAAGTA TAAAGATGGCAGAGACATTCCTATTTACCTCAGAGTCGGTGAACGAGGGACACCCTGACAAGCT CTGCGACCAAATCTCCGATGCTGTCCTCGACGCTTGCCTCGAGCAGGACCCAGACAGCAAAGTT GCCTGCGAAACATGCACCAAAACCAACTTGGTCATGGTCTTCGGAGAAATCACGACCAAGGCCA ACGTTGACTACGAGAAGATAGTGCGTGACACCTGCAGGAACATCGGCTTCGTCTCAAATGATGT GGGACTGGATGCCGACAACTGCAAGGTCCTCGTCAACATTGAGCAGCAGAGCCCTGATATTGCT CAGGGTGTACACGGCCACCTTACCAAAAAACCTGAAGAAATTGGTGCTGGTGACCAGGGTCACA TGTTTGGCTATGCCACTGATGAAACCCCTGAATTGATGCCATTGAGCCATGTTCTTGCAACAAA ACTCGGTGCTCGTCTCACCGAGGTTCGCAAGAACGGTACCTGCCCTTGGCTGAGGCCTGATGGG AAGACCCAAGTGACCGTTGAGTATTACAATGACAATGGTGCCAGGGTTCCTATTCGTGTACACA CCGTGCTAATCTCCACCCAACACGACGAGACTGTCACCAATGACGAAATTGCTGCTGACCTCAA AGAGCATGTGATCAAGCCTGTGATCCCAGAGAAGTACCTTGATGAGAAGACCATTTTCCACTTG AACCCTTCAGGCCGTTTTGTCATTGGTGGCCCTCATGGCGATGCTGGTCTCACCGGCCGCAAGA TCATTATCGATACTTATGGAGGATGGGGTGCTCATGGTGGTGGTGCTTTCTCCGGGAAGGACCC TACCAAGGTTGATAGGAGTGGTGCTTACATTGTGAGACAGGCTGCTAAGAGCATTGTGGCAAGT GGACTTGCCAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.213401349

Conservation Information
Conserved circRNAs	NA
PMCS	1.213401349

			
						 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
						lv et al., 2020

circRNA

Detail information of GLYMA_17G039000_circ_ag.4

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