Plant Circular RNA Database

Detail information of GLYMA_18G104400_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_18G104400_circ_g.1
					
						ID in PlantcircBase
						gma_circ_004685
					
						Alias
						Gm18circRNA1543
					
						Organism
						
							Glycine max						
					
						Position
						
							chr18: 11495294-11497987  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_18G104400						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_18G104400_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						root, stem
					
						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
						KRG98876:6

General Information
CircRNA Name	GLYMA_18G104400_circ_g.1
ID in PlantcircBase	gma_circ_004685
Alias	Gm18circRNA1543
Organism	Glycine max
Position	chr18: 11495294-11497987 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_18G104400
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_18G104400_circ_g.2
Support reads	NA
Tissues	root, stem
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	KRG98876:6

			
						 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  
						
							GAGCAGGATTTGCATCAGGATGATAAACAGACAAAGCACTCATGGCATTGACAAGCATACCCAT
AGGATGTGCATCATGAGGCATTGATTGTATCATATCctggatttaacaccttcaatgaacgctg
gaatgttctcagcagttccaatttcactcagcattttgaggacagcctgcaaaaccaaaagtta
cattagcc

									
								

					

						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
						
							CTGGATTTAACACCTTCAATGAACGCTGGAATGTTCTCAGCAGTTCCAATTTCACTCAGCATTT
TGAGGACAGCCTGCAAAACCAAAAGTTACATTAGCCTTGTTCAATGAGTATAGTCAAAGGTTAG
ACTTCTGCTTTGTTTGCTTTCCATATTTAAATAAGCAATAGAAAATAATCATGAGAACATCCTA
AACCATTTATATTACCTCATTGGCTCCACCATGAAGAGGTCCATATAGAGCTCCAACAGCCCCG
GCAATAGCAGTATATACATCAACACCACTGCAAAGTACAAATAAGGTAATAGTTACATAATATA
AGACAGGTTGCTTCATTTTGCTCGGAAAATTGCCAGTTAGACCAAATTGTGTCTGTTTAAAAGC
AGTCAAAGCAGACTCAGTAAGTTTGATTTGCAGGACTCCCTTGCTTAAGTAGTAAGATGTCTAC
CTTGATGAGAGGTGTCGTACAGCAGATGTAGAGCAATTCATTTCATGTTCTGCATGCAGGATGA
AGATAATGTCCAGTGCTCGAGTTAGCCGAGGATTAGGTTTATATGATCGATTGCCACTGAAAAC
ATGGATATGGAAATTTTATTTAAGTTACGCTGATAAATCTCATGATAATAAAAATCAATTAGTA
TGTAGTTAACATTCTACCATCAAAGATTAAATCATACTGGTTTTTTTTGGTGAGTAAATGATAT
TACTTTTGATAAGATATAGATTTTTTTATATCAGAGGAAGAGAAAAAAGAAAACCATCATGAAG
CTCAGAACTCCGAAGAAAAAATAACTTAAAAACAAAAAACAACTTCAGGTTATTACAAATATCA
ATCAGACTTACAAAGAATCTAGCATGTATAGGAAGTTCTCTGTGTAAGAAAGTTTGTTGGATGG
AAGCACAGGTGGCCTTCCTGCCAATCTAAGATTAATTGCAGCAGCAATTGTTGTTATCTGCAAT
CAAAGAAGAAAATGATGATGTTACATAGCAGTTGGACAGCTTGCAAATAAGCATTGAATTGCTT
GAATACTTCACAAAAATTTCAGAAGATAACCAATAAGCACATGAGAAGCATTCAGAATAATTGA
ATTACTTATTACATATATCTGGGGCAGAAGCTTAAGAAGAATAAAGACAACGGAATAAGCAAAC
CTTTCCAATAACCCGTGCTACTTGCTTGTCTCTCACTTGCTTTGAGTTGTAGATATCAAGACCC
TACATTAAAATATAAAAAAGTTTTAAAAGAAATAGCCAAACCTGAATCAAATACAAGAAGGCAA
TAACATGTTAAATCCTAATAAATAATAGAGTACAACTCTGCACTCACATGTGTATTGAACTAAG
ACATAGGAAAATGTAATATCCCATGAGAATCACTTATCTAAATAATGAACGACATCAAATCTAA
AAGAGAGGCAGGCAGGTAATTCAACAAACTGTAATTCTGGGAGTACCAATTTTTTCAATATAAC
AACTAAGCATTATTTAATTGTGACAGCAGTAATTGATTAAAAATAAATCATTATTTTCAATAGA
ACAATTTAGCATTATTTGGCAGAATCTACTGTAAAAATTGACTGGAAAACAATCACCTATTTTT
CCTTTTCTTAAGTAAGTACATCAAAGCTGAGGTAAACAATAGTTCAAACTTAGAAAATACGATG
CAGATCTTTTGATTACTTGTCTCATTATACATTTAAATAGTGCAATCATCTTAGGCAATAGCTA
CCAACTCAGATCTTCAGGGTTCAGAAAACTTAAAAGCAAAATAACATTAATTTATAAATTGTTA
TAAGAGTTCTGAGTTTTAATTTGAAACTAAAATTTTCAGTTTCAATTTCGTAGAGATCTAAAAT
CTTCAGAGACTCCCATAAATAGTGCAATCATCTTAGGCAATAGCTACCAACTCAGATCTTCAGG
GTTCAGAAAACTTAAAGCAAAATAACATTAATTTATAAATTGTTACAAGAGTTCTGAGTTTTAA
TTTGAAACTAAAATTTTCAGTTTCAATTTCGTAGAGATCTAAAATCTTCAGAGACTCCCATAAT
GTTTAGAATCCATTAGAATATCCTAGAGGCATATCTCATAATATCATGGTTATAAATTTAGAAT
AGTTCCGAGTATCTTAGATAATCTCTTAGGAATACCTTCCATATTTCTTTACTTTTACAATTTG
TTTCCTCGTTTCATCAGGATTAGGAGTCTTGTATAAATATAAATAGAGCTTAGAGCTTTGTTTT
CAATATCACATCCAAGATCAAACACGTCATCTCATTGTATACAAGAGAACATTATTCAGAATAT
ATATTCTCTCTCCTCCTCCTTACCTAGCTAAGTCCCTTTAATCTTGACAGAATCAAAGTTCGTT
GCTGTATATAATACTCACAAAAAATCAAATGAAACAAGCTAAAAGGTTTGCAAACTATAGAAAT
TTTAAAAAATATTAGTTCTACAAAATAAAATTAACATAATTCCATAACAAAGGTAAGATTTGCA
AAGTTCAATCTTATATTATCATTGTTTGTGAATCAATGCTGAACAGATCAAAAGTTCAGTAACT
TGAACTTGACCAAAGTCTCTGTTACTTACTTTGAGAGCAGGATTTGCATCAGGATGATAAACAG
ACAAAGCACTCATGGCATTGACAAGCATACCCATAGGATGTGCATCATGAGGCATTGATTGTAT
CATATC
						
					

			
		

Sequences
Splice junction sequence	GAGCAGGATTTGCATCAGGATGATAAACAGACAAAGCACTCATGGCATTGACAAGCATACCCAT AGGATGTGCATCATGAGGCATTGATTGTATCATATCctggatttaacaccttcaatgaacgctg gaatgttctcagcagttccaatttcactcagcattttgaggacagcctgcaaaaccaaaagtta cattagcc
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	CTGGATTTAACACCTTCAATGAACGCTGGAATGTTCTCAGCAGTTCCAATTTCACTCAGCATTT TGAGGACAGCCTGCAAAACCAAAAGTTACATTAGCCTTGTTCAATGAGTATAGTCAAAGGTTAG ACTTCTGCTTTGTTTGCTTTCCATATTTAAATAAGCAATAGAAAATAATCATGAGAACATCCTA AACCATTTATATTACCTCATTGGCTCCACCATGAAGAGGTCCATATAGAGCTCCAACAGCCCCG GCAATAGCAGTATATACATCAACACCACTGCAAAGTACAAATAAGGTAATAGTTACATAATATA AGACAGGTTGCTTCATTTTGCTCGGAAAATTGCCAGTTAGACCAAATTGTGTCTGTTTAAAAGC AGTCAAAGCAGACTCAGTAAGTTTGATTTGCAGGACTCCCTTGCTTAAGTAGTAAGATGTCTAC CTTGATGAGAGGTGTCGTACAGCAGATGTAGAGCAATTCATTTCATGTTCTGCATGCAGGATGA AGATAATGTCCAGTGCTCGAGTTAGCCGAGGATTAGGTTTATATGATCGATTGCCACTGAAAAC ATGGATATGGAAATTTTATTTAAGTTACGCTGATAAATCTCATGATAATAAAAATCAATTAGTA TGTAGTTAACATTCTACCATCAAAGATTAAATCATACTGGTTTTTTTTGGTGAGTAAATGATAT TACTTTTGATAAGATATAGATTTTTTTATATCAGAGGAAGAGAAAAAAGAAAACCATCATGAAG CTCAGAACTCCGAAGAAAAAATAACTTAAAAACAAAAAACAACTTCAGGTTATTACAAATATCA ATCAGACTTACAAAGAATCTAGCATGTATAGGAAGTTCTCTGTGTAAGAAAGTTTGTTGGATGG AAGCACAGGTGGCCTTCCTGCCAATCTAAGATTAATTGCAGCAGCAATTGTTGTTATCTGCAAT CAAAGAAGAAAATGATGATGTTACATAGCAGTTGGACAGCTTGCAAATAAGCATTGAATTGCTT GAATACTTCACAAAAATTTCAGAAGATAACCAATAAGCACATGAGAAGCATTCAGAATAATTGA ATTACTTATTACATATATCTGGGGCAGAAGCTTAAGAAGAATAAAGACAACGGAATAAGCAAAC CTTTCCAATAACCCGTGCTACTTGCTTGTCTCTCACTTGCTTTGAGTTGTAGATATCAAGACCC TACATTAAAATATAAAAAAGTTTTAAAAGAAATAGCCAAACCTGAATCAAATACAAGAAGGCAA TAACATGTTAAATCCTAATAAATAATAGAGTACAACTCTGCACTCACATGTGTATTGAACTAAG ACATAGGAAAATGTAATATCCCATGAGAATCACTTATCTAAATAATGAACGACATCAAATCTAA AAGAGAGGCAGGCAGGTAATTCAACAAACTGTAATTCTGGGAGTACCAATTTTTTCAATATAAC AACTAAGCATTATTTAATTGTGACAGCAGTAATTGATTAAAAATAAATCATTATTTTCAATAGA ACAATTTAGCATTATTTGGCAGAATCTACTGTAAAAATTGACTGGAAAACAATCACCTATTTTT CCTTTTCTTAAGTAAGTACATCAAAGCTGAGGTAAACAATAGTTCAAACTTAGAAAATACGATG CAGATCTTTTGATTACTTGTCTCATTATACATTTAAATAGTGCAATCATCTTAGGCAATAGCTA CCAACTCAGATCTTCAGGGTTCAGAAAACTTAAAAGCAAAATAACATTAATTTATAAATTGTTA TAAGAGTTCTGAGTTTTAATTTGAAACTAAAATTTTCAGTTTCAATTTCGTAGAGATCTAAAAT CTTCAGAGACTCCCATAAATAGTGCAATCATCTTAGGCAATAGCTACCAACTCAGATCTTCAGG GTTCAGAAAACTTAAAGCAAAATAACATTAATTTATAAATTGTTACAAGAGTTCTGAGTTTTAA TTTGAAACTAAAATTTTCAGTTTCAATTTCGTAGAGATCTAAAATCTTCAGAGACTCCCATAAT GTTTAGAATCCATTAGAATATCCTAGAGGCATATCTCATAATATCATGGTTATAAATTTAGAAT AGTTCCGAGTATCTTAGATAATCTCTTAGGAATACCTTCCATATTTCTTTACTTTTACAATTTG TTTCCTCGTTTCATCAGGATTAGGAGTCTTGTATAAATATAAATAGAGCTTAGAGCTTTGTTTT CAATATCACATCCAAGATCAAACACGTCATCTCATTGTATACAAGAGAACATTATTCAGAATAT ATATTCTCTCTCCTCCTCCTTACCTAGCTAAGTCCCTTTAATCTTGACAGAATCAAAGTTCGTT GCTGTATATAATACTCACAAAAAATCAAATGAAACAAGCTAAAAGGTTTGCAAACTATAGAAAT TTTAAAAAATATTAGTTCTACAAAATAAAATTAACATAATTCCATAACAAAGGTAAGATTTGCA AAGTTCAATCTTATATTATCATTGTTTGTGAATCAATGCTGAACAGATCAAAAGTTCAGTAACT TGAACTTGACCAAAGTCTCTGTTACTTACTTTGAGAGCAGGATTTGCATCAGGATGATAAACAG ACAAAGCACTCATGGCATTGACAAGCATACCCATAGGATGTGCATCATGAGGCATTGATTGTAT CATATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.063969203

Conservation Information
Conserved circRNAs	NA
PMCS	0.063969203

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11497986-11497983(-)
						
						Potential amino acid sequence
						
							MIQSMPHDAHPMGMLVNAMSALSVYHPDANPALKGLDIYNSKQVRDKQVARVIGKITTIAAAIN
LRLAGRPPVLPSNKLSYTENFLYMLDSFGNRSYKPNPRLTRALDIIFILHAEHEMNCSTSAVRH
LSSSGVDVYTAIAGAVGALYGPLHGGANEAVLKMLSEIGTAENIPAFIEGVKSRI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11497986-11497983(-)
Potential amino acid sequence	MIQSMPHDAHPMGMLVNAMSALSVYHPDANPALKGLDIYNSKQVRDKQVARVIGKITTIAAAIN LRLAGRPPVLPSNKLSYTENFLYMLDSFGNRSYKPNPRLTRALDIIFILHAEHEMNCSTSAVRH LSSSGVDVYTAIAGAVGALYGPLHGGANEAVLKMLSEIGTAENIPAFIEGVKSRI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_18G104400_circ_g.1

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