Plant Circular RNA Database

Detail information of GLYMA_U017000_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_U017000_circ_g.1
					
						ID in PlantcircBase
						gma_circ_007839
					
						Alias
						gma-circRNA2847
					
						Organism
						
							Glycine max						
					
						Position
						
							chrscaffold_21: 2815348-2817243  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_U017000						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_U017000_circ_g.2 						
					
						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
						KRG88972:2
KRG88974:2
KRG88970:4
KRG88971:4
KRG88973:4
KRG88975:4

General Information
CircRNA Name	GLYMA_U017000_circ_g.1
ID in PlantcircBase	gma_circ_007839
Alias	gma-circRNA2847
Organism	Glycine max
Position	chrscaffold_21: 2815348-2817243 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_U017000
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_U017000_circ_g.2
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	KRG88972:2 KRG88974:2 KRG88970:4 KRG88971:4 KRG88973:4 KRG88975:4

			
						 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  
						
							AATCGAAAAAAGATCTTGTTGATAAGCATACCACATTAGCAACAACAAAATTCAGCTCCTTAGT
GAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGCcaatgaagcaccggtgccaactacaaat
agctttgcgccgttccgctgcataagagatggagatgatcctcattttattgggaaaaaattat
gtgacttg

									
								

					

						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: 301
Transcript exons: ,2815348-2815392,2815470-2815523,2816000-2816131,2817175
-2817243
CAATGAAGCACCGGTGCCAACTACAAATAGCTTTGCGCCGTTCCGCACTATAGCACCTATTCTT
TGTAGAAGGGTATACGATGTTCCAGGTAAAGCCACCTGAAAAGCATTATCAGGACAACCATAGA
ATAATTTAGCAATGGGCCCAGCACTGACTGCAAGAGGAGGTTTGAGAGAAATAGTGGGTGCAGG
AAACCACACAAGCACAAAACCTGTTACAATGCCTGTTACCACATTAGCAACAACAAAATTCAGC
TCCTTAGTGAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGC
						
					

						Genomic sequence
						
							CAATGAAGCACCGGTGCCAACTACAAATAGCTTTGCGCCGTTCCGCTGCATAAGAGATGGAGAT
GATCCTCATTTTATTGGGAAAAAATTATGTGACTTGCTTTAAATGATCCAACACATACCACTAT
AGCACCTATTCTTTGTAGAAGGGTATACGATGTTCCAGGTAAAGCCACCTGTAGAGATTATCAA
CTTCTAGTCATGATCCACCGTAACATATTTTTTTTGTTTACTTAATCACGGTAACAATTATAAC
TAAAATTAAAATGATTAAATAAGTTTTAGGTTTTTTTAGTCCTTGATAAAAAAATTTCTTATTT
TCAATAATTGATATATTAAAAGTTTTATTTTGAATCTTAATCATCAGTTAAGTAATCATGTGAC
ACCATCTCAACAACTAATATATATTGAAACAGCTCTTAATTGTATCACGTTATCATTTAAACCA
ATAACCGGGACTTAAAATAAAATTTTTAATATATTAGGAATTCAAAATAACAAAAAATATTATC
AAGAATTCAAAATAATATATATATATATATATATATATATATATATATATATATATATATATAT
ATATTAAAGATATCAAACATATTTAAAGCAATTATAAAATAAAGAAAGAAGAAATGAAGAAAGG
CAGAGTGTTAACCTGAAAAGCATTATCAGGACAACCATAGAATAATTTAGCAATGGGCCCAGCA
CTGACTGCAAGAGGAGGTTTGAGAGAAATAGTGGGTGCAGGAAACCACACAAGCACAAAACCTG
TTACAATGCCTGTTACCTAAGATAAATTTAAAAACTGAATTAGGCGGTTCCCGTATATATATAT
ATATATATATATATATAATATGTGTGTGTGGACAACATACAAATTGAGTTCATCAGAGTCCACA
GAGCTGATTAAAATATGATTAGTGACCAGACAGCTTCTAGGGATGAATAGTAAACAACATGTGG
ATTGGCTTTCTATCGAGTAGGCATAAATAGATAAATTATTAAATCAATATTTTTTACCACCTAA
TGTTTGTTTGAATAATATGATTCTACCATTTTGTTGATCTATATATGCGAATTGGAAACCTAGC
TAAGGCATCAAGTGTAGTTCACAAACTCGGCACATTAGTAGAAAAGATAGAGCTGACACATTAA
AAGATAATTATTTTATATCTTCTTCTAATTATATATTTTCGTTTGAATTACTTTAAGATAATTA
TTTTAAAAATTAACAAATTTATTATACAAATGAATTATGATTGAATGATTATATAAAACTTTTT
ATACTATCAGCCCATAATCCTTATTCCCTTAAAAATATGTTTAATCACTCATTTGATAGTTACA
AAAAATATTTCCTTTAAATTCTTGCACGTACCAGTTTTAATCTTTTATAATTCCTACACATATC
ATTTTAATCCCTTTTAATTTCTAAAATGAGAACTAAAACAGATTAAAAGTGATGCAGAGTAGGA
ACTAAAAGGATATGTTTCTAAACAGAGGATAAAAGGTCTTTATAACTAGGAGATCAAGAGAAAT
GTTAGGAATAATTGATACACTCTTCTAAAAATAGACTCTTTCTTATTAATTAGTTAAAATTTAT
TAAAAATAATAAATTTTATGAATTATCTTATTTAATGATTTTCTCTCATTTTATTATTTTCAAT
CTATTTTCAATCAATTTTAATCAATCACATAAAAATATATTTAAAAGAATATGTTATAGAGGAT
TTTACTAGCATTTCTCGTAACACCAAATTATAAAATCTTGAATAACATCTAGTGGTAAATAACT
ACAGAATCGAAAAAAGATCTTGTTGATAAGCATACCACATTAGCAACAACAAAATTCAGCTCCT
TAGTGAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGC
						
					

			
		

Sequences
Splice junction sequence	AATCGAAAAAAGATCTTGTTGATAAGCATACCACATTAGCAACAACAAAATTCAGCTCCTTAGT GAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGCcaatgaagcaccggtgccaactacaaat agctttgcgccgttccgctgcataagagatggagatgatcctcattttattgggaaaaaattat gtgacttg
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: 301 Transcript exons: ,2815348-2815392,2815470-2815523,2816000-2816131,2817175 -2817243 CAATGAAGCACCGGTGCCAACTACAAATAGCTTTGCGCCGTTCCGCACTATAGCACCTATTCTT TGTAGAAGGGTATACGATGTTCCAGGTAAAGCCACCTGAAAAGCATTATCAGGACAACCATAGA ATAATTTAGCAATGGGCCCAGCACTGACTGCAAGAGGAGGTTTGAGAGAAATAGTGGGTGCAGG AAACCACACAAGCACAAAACCTGTTACAATGCCTGTTACCACATTAGCAACAACAAAATTCAGC TCCTTAGTGAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGC
Genomic sequence	CAATGAAGCACCGGTGCCAACTACAAATAGCTTTGCGCCGTTCCGCTGCATAAGAGATGGAGAT GATCCTCATTTTATTGGGAAAAAATTATGTGACTTGCTTTAAATGATCCAACACATACCACTAT AGCACCTATTCTTTGTAGAAGGGTATACGATGTTCCAGGTAAAGCCACCTGTAGAGATTATCAA CTTCTAGTCATGATCCACCGTAACATATTTTTTTTGTTTACTTAATCACGGTAACAATTATAAC TAAAATTAAAATGATTAAATAAGTTTTAGGTTTTTTTAGTCCTTGATAAAAAAATTTCTTATTT TCAATAATTGATATATTAAAAGTTTTATTTTGAATCTTAATCATCAGTTAAGTAATCATGTGAC ACCATCTCAACAACTAATATATATTGAAACAGCTCTTAATTGTATCACGTTATCATTTAAACCA ATAACCGGGACTTAAAATAAAATTTTTAATATATTAGGAATTCAAAATAACAAAAAATATTATC AAGAATTCAAAATAATATATATATATATATATATATATATATATATATATATATATATATATAT ATATTAAAGATATCAAACATATTTAAAGCAATTATAAAATAAAGAAAGAAGAAATGAAGAAAGG CAGAGTGTTAACCTGAAAAGCATTATCAGGACAACCATAGAATAATTTAGCAATGGGCCCAGCA CTGACTGCAAGAGGAGGTTTGAGAGAAATAGTGGGTGCAGGAAACCACACAAGCACAAAACCTG TTACAATGCCTGTTACCTAAGATAAATTTAAAAACTGAATTAGGCGGTTCCCGTATATATATAT ATATATATATATATATAATATGTGTGTGTGGACAACATACAAATTGAGTTCATCAGAGTCCACA GAGCTGATTAAAATATGATTAGTGACCAGACAGCTTCTAGGGATGAATAGTAAACAACATGTGG ATTGGCTTTCTATCGAGTAGGCATAAATAGATAAATTATTAAATCAATATTTTTTACCACCTAA TGTTTGTTTGAATAATATGATTCTACCATTTTGTTGATCTATATATGCGAATTGGAAACCTAGC TAAGGCATCAAGTGTAGTTCACAAACTCGGCACATTAGTAGAAAAGATAGAGCTGACACATTAA AAGATAATTATTTTATATCTTCTTCTAATTATATATTTTCGTTTGAATTACTTTAAGATAATTA TTTTAAAAATTAACAAATTTATTATACAAATGAATTATGATTGAATGATTATATAAAACTTTTT ATACTATCAGCCCATAATCCTTATTCCCTTAAAAATATGTTTAATCACTCATTTGATAGTTACA AAAAATATTTCCTTTAAATTCTTGCACGTACCAGTTTTAATCTTTTATAATTCCTACACATATC ATTTTAATCCCTTTTAATTTCTAAAATGAGAACTAAAACAGATTAAAAGTGATGCAGAGTAGGA ACTAAAAGGATATGTTTCTAAACAGAGGATAAAAGGTCTTTATAACTAGGAGATCAAGAGAAAT GTTAGGAATAATTGATACACTCTTCTAAAAATAGACTCTTTCTTATTAATTAGTTAAAATTTAT TAAAAATAATAAATTTTATGAATTATCTTATTTAATGATTTTCTCTCATTTTATTATTTTCAAT CTATTTTCAATCAATTTTAATCAATCACATAAAAATATATTTAAAAGAATATGTTATAGAGGAT TTTACTAGCATTTCTCGTAACACCAAATTATAAAATCTTGAATAACATCTAGTGGTAAATAACT ACAGAATCGAAAAAAGATCTTGTTGATAAGCATACCACATTAGCAACAACAAAATTCAGCTCCT TAGTGAATTTTTCTTTACGGCGCTCCAATTCTGCAGCAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.20574437

Conservation Information
Conserved circRNAs	NA
PMCS	0.20574437

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2816041-2816000(+)
						
						Potential amino acid sequence
						
							MGPALTARGGLREIVGAGNHTSTKPVTMPVTTLATTKFSSLVNFSLRRSNSAAANEAPVPTTNS
FAPFRTIAPILCRRVYDVPGKAT*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2816041-2816000(+)
Potential amino acid sequence	MGPALTARGGLREIVGAGNHTSTKPVTMPVTTLATTKFSSLVNFSLRRSNSAAANEAPVPTTNS FAPFRTIAPILCRRVYDVPGKAT*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_U017000_circ_g.1

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