Plant Circular RNA Database

Detail information of GLYMA_19G186900_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_19G186900_circ_g.1
					
						ID in PlantcircBase
						gma_circ_004994
					
						Alias
						Gm19circRNA487
					
						Organism
						
							Glycine max						
					
						Position
						
							chr19: 44531317-44533615  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_19G186900						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							GLYMA_19G186900_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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  
						
							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
						KRG96062:7
KRG96063:6

General Information
CircRNA Name	GLYMA_19G186900_circ_g.1
ID in PlantcircBase	gma_circ_004994
Alias	Gm19circRNA487
Organism	Glycine max
Position	chr19: 44531317-44533615 JBrowse»
Reference genome	v2.0.38
Type	ue-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_19G186900
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	GLYMA_19G186900_circ_g.2
Support reads	NA
Tissues	leaf, 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	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	KRG96062:7 KRG96063:6

			
						 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  
						
							AAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCCACAATCTTTTAAATGCCTCTTTA
CTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAGgaactaaattctgattggcaacgagcag
caacaagcctacttgttgcaataggctcacatttaccagatctcgtgagtatctacttttagta
cttctagt

									
								

					

						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: 612
Transcript exons: 44531317-44531388,44531694-44531784,44531891-44531986,44
532763-44532841,44532947-44533010,44533231-44533334,4453
3510-44533615
GAACTAAATTCTGATTGGCAACGAGCAGCAACAAGCCTACTTGTTGCAATAGGCTCACATTTAC
CAGATCTCATGATGGAAGAAATTTATCTTCATTTATCCGGGGCAAATTCAGCATTACAGTCTAT
GGTTCAAATCCTTGCAGAATTTGCTTCTACTGATCCCTTGCAGTTCATTCCACACTGGAAAGGT
GTACTTTCACGAATTTTGCCAATTCTTGGAAATGTGCGAGACATGCACCGGCCAATTTTTGCAA
ATGCATTTAAGTGTTGGTGTCAAGCTGCTTGGCAATATAGTATAGATTTCCCTTCACATTTTCC
CCAAGATGGTGATGTCATGTCATTTCTAAATTCTGCTTTTGAGCTTTTGTTGAGAGTTTGGGCA
GCTTCAAGAGATTTAAAGGTTCGCGTGGCTTCTGTAGAAGCACTTGGGCAGATGGTAGGTCTCA
TAACACGAACACAATTGAAGACTGCCCTACCAAGGCTTATTCCTACAATATTGGACTTGTATAA
AAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCCACAATCTTTTAAATGCCTCTTTA
CTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAG
						
					

						Genomic sequence
						
							GAACTAAATTCTGATTGGCAACGAGCAGCAACAAGCCTACTTGTTGCAATAGGCTCACATTTAC
CAGATCTCGTGAGTATCTACTTTTAGTACTTCTAGTACAGACTCTTTTATTACCTGTTAAATAA
GTCTAAGTAATGAGCTGTTGTCTATACTCCATAGTTTTTACTTTATCTCTTTAACTGGGAATTA
TTACAATATTTTTCTATCATGCTAAAGTAATATCTCCCACTCATTTTACTTTCATGGGATGTAC
CATTGGCTTCTATTTATATTTTATATACTTTCTTTTGCACTTCTCCGAGTTTTCCTGGATTCTA
AGCTGGATTCTTTGTCTCATGTCTTTAATCTCTCTTTCCAATTAATTGGTATTGCAGATGATGG
AAGAAATTTATCTTCATTTATCCGGGGCAAATTCAGCATTACAGTCTATGGTTCAAATCCTTGC
AGAATTTGCTTCTACTGATCGTTAGTAATCAATTTATACTATGTGCTTCAGCTGTCAAATTTTA
TTAGGGAATCACATTCTATGGTTAACACTGATGTGCTTTTCTTCCATATAAATCTGATACAGCC
TTGCAGTTCATTCCACACTGGAAAGGTGTACTTTCACGAATTTTGCCAATTCTTGGAAATGTGC
GAGACATGCACCGGCCAATTTTTGCAAATGGTATGGTGAATCGGTGATTTTTCTGTTACTTTGT
TGATGGATGATTGGATGTTTAATATGTGATTCCATCTTTAATATCTTTTGGTGATTTATCTTTA
ACTGGTTGAAGTTGCTGACAAGTGCACTTTATGTGTAATATGCCCGGCCAAATTTAATTGCATG
GGAAATTACTTATTTTGTAAATTTCATGCCATAATAGGACATTGCATAATACTGATAAATGCAA
AACTGGCAAACCTTATCAATTAAATGTAGTTGTGTGTGATGAACAACTTGAAAATCTTAGAAAC
TTTAAAGGGCAGTGCATCTTGTAGTTTCTGAAATTTTAAAGACCTTGGCCAAGAAAAACATTTT
AAGATAAGATTGGTGTCATTAATAGGGTAACATTTTGAGTGAATGGTAAAGTGTGGTTGGAGAT
TTCTAATTTAGCCTGGAAGTGAACAATCTTGGCGACTTGGTTTTGGAGCATGCCAAATTTGGTG
ATCTTATTTTCAATTTTTCATTGTACTTTTTTTTAAAGTTCACTCTAGATTTAGTTTTTAATGC
AGTATATTAAGGCTCATAAACCAATGAAATATTTTAAAGTTGTTTTGAAAATATACAATTTTCT
AAGTTTGTGATCCTTTTGCTTTTTGTTGTACTTTTAATTTGGGATCTCACTTTTTGATGGTGGG
GCAAATGGGGGAAGAGGAATTTTGGCTAACCTTGCTCAAAGGTGTAATTGCTGTGGATAATCTG
ATTGATCTATTTAACTCATAATTTGTTATTGTTTGCAGCATTTAAGTGTTGGTGTCAAGCTGCT
TGGCAATATAGTATAGATTTCCCTTCACATTTTCCCCAAGATGGTGATGTCATGTGAGATCAAT
ATATAATCTTGTTTATTTTCTGATTCAACACATCATGTTTCCTTTATTTCTTGTCTGAAGGTGA
GAAATATCTCTAATTCTCTATGTAGTGCAGGTCATTTCTAAATTCTGCTTTTGAGCTTTTGTTG
AGAGTTTGGGCAGCTTCAAGAGATTTAAAGGTCACTATTATATTGCTTTATTTTTGTTTTTTTA
CATTCTACTGCTTATATGATTCTCTATTCTTTTCCTTGTATGAGTTGTATATATAAATTGAGTT
TCTGAACTCATTTTGTTTGTGTAGATGAATTGACATTTGATAGTATATAAATGTATCATTTACA
TGATATATTTACCTGATTGTTTTTGATCTTTGTCTTATGTGAACTTATTTGGTTTTAGGTTCGC
GTGGCTTCTGTAGAAGCACTTGGGCAGATGGTAGGTCTCATAACACGAACACAATTGAAGACTG
CCCTACCAAGGCTTATTCCTACAATATTGGACTTGTAAGATTGATCAGTGCAAAGCATTTTATA
TTTTAGTAGTTCTCTATTATTGTTATTTGATGAGTGCTTTATTCTTATTTAATGAGTGCTTTCT
CATAAGATCAGAATATGAAAGATACTTATAATATCAACATGTATTATAGAATGGATTCATATTC
ATCTTTTCTTCTGTCAGGTATAAAAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCC
ACAATCTTTTAAATGCCTCTTTACTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAG
						
					

			
		

Sequences
Splice junction sequence	AAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCCACAATCTTTTAAATGCCTCTTTA CTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAGgaactaaattctgattggcaacgagcag caacaagcctacttgttgcaataggctcacatttaccagatctcgtgagtatctacttttagta cttctagt
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: 612 Transcript exons: 44531317-44531388,44531694-44531784,44531891-44531986,44 532763-44532841,44532947-44533010,44533231-44533334,4453 3510-44533615 GAACTAAATTCTGATTGGCAACGAGCAGCAACAAGCCTACTTGTTGCAATAGGCTCACATTTAC CAGATCTCATGATGGAAGAAATTTATCTTCATTTATCCGGGGCAAATTCAGCATTACAGTCTAT GGTTCAAATCCTTGCAGAATTTGCTTCTACTGATCCCTTGCAGTTCATTCCACACTGGAAAGGT GTACTTTCACGAATTTTGCCAATTCTTGGAAATGTGCGAGACATGCACCGGCCAATTTTTGCAA ATGCATTTAAGTGTTGGTGTCAAGCTGCTTGGCAATATAGTATAGATTTCCCTTCACATTTTCC CCAAGATGGTGATGTCATGTCATTTCTAAATTCTGCTTTTGAGCTTTTGTTGAGAGTTTGGGCA GCTTCAAGAGATTTAAAGGTTCGCGTGGCTTCTGTAGAAGCACTTGGGCAGATGGTAGGTCTCA TAACACGAACACAATTGAAGACTGCCCTACCAAGGCTTATTCCTACAATATTGGACTTGTATAA AAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCCACAATCTTTTAAATGCCTCTTTA CTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAG
Genomic sequence	GAACTAAATTCTGATTGGCAACGAGCAGCAACAAGCCTACTTGTTGCAATAGGCTCACATTTAC CAGATCTCGTGAGTATCTACTTTTAGTACTTCTAGTACAGACTCTTTTATTACCTGTTAAATAA GTCTAAGTAATGAGCTGTTGTCTATACTCCATAGTTTTTACTTTATCTCTTTAACTGGGAATTA TTACAATATTTTTCTATCATGCTAAAGTAATATCTCCCACTCATTTTACTTTCATGGGATGTAC CATTGGCTTCTATTTATATTTTATATACTTTCTTTTGCACTTCTCCGAGTTTTCCTGGATTCTA AGCTGGATTCTTTGTCTCATGTCTTTAATCTCTCTTTCCAATTAATTGGTATTGCAGATGATGG AAGAAATTTATCTTCATTTATCCGGGGCAAATTCAGCATTACAGTCTATGGTTCAAATCCTTGC AGAATTTGCTTCTACTGATCGTTAGTAATCAATTTATACTATGTGCTTCAGCTGTCAAATTTTA TTAGGGAATCACATTCTATGGTTAACACTGATGTGCTTTTCTTCCATATAAATCTGATACAGCC TTGCAGTTCATTCCACACTGGAAAGGTGTACTTTCACGAATTTTGCCAATTCTTGGAAATGTGC GAGACATGCACCGGCCAATTTTTGCAAATGGTATGGTGAATCGGTGATTTTTCTGTTACTTTGT TGATGGATGATTGGATGTTTAATATGTGATTCCATCTTTAATATCTTTTGGTGATTTATCTTTA ACTGGTTGAAGTTGCTGACAAGTGCACTTTATGTGTAATATGCCCGGCCAAATTTAATTGCATG GGAAATTACTTATTTTGTAAATTTCATGCCATAATAGGACATTGCATAATACTGATAAATGCAA AACTGGCAAACCTTATCAATTAAATGTAGTTGTGTGTGATGAACAACTTGAAAATCTTAGAAAC TTTAAAGGGCAGTGCATCTTGTAGTTTCTGAAATTTTAAAGACCTTGGCCAAGAAAAACATTTT AAGATAAGATTGGTGTCATTAATAGGGTAACATTTTGAGTGAATGGTAAAGTGTGGTTGGAGAT TTCTAATTTAGCCTGGAAGTGAACAATCTTGGCGACTTGGTTTTGGAGCATGCCAAATTTGGTG ATCTTATTTTCAATTTTTCATTGTACTTTTTTTTAAAGTTCACTCTAGATTTAGTTTTTAATGC AGTATATTAAGGCTCATAAACCAATGAAATATTTTAAAGTTGTTTTGAAAATATACAATTTTCT AAGTTTGTGATCCTTTTGCTTTTTGTTGTACTTTTAATTTGGGATCTCACTTTTTGATGGTGGG GCAAATGGGGGAAGAGGAATTTTGGCTAACCTTGCTCAAAGGTGTAATTGCTGTGGATAATCTG ATTGATCTATTTAACTCATAATTTGTTATTGTTTGCAGCATTTAAGTGTTGGTGTCAAGCTGCT TGGCAATATAGTATAGATTTCCCTTCACATTTTCCCCAAGATGGTGATGTCATGTGAGATCAAT ATATAATCTTGTTTATTTTCTGATTCAACACATCATGTTTCCTTTATTTCTTGTCTGAAGGTGA GAAATATCTCTAATTCTCTATGTAGTGCAGGTCATTTCTAAATTCTGCTTTTGAGCTTTTGTTG AGAGTTTGGGCAGCTTCAAGAGATTTAAAGGTCACTATTATATTGCTTTATTTTTGTTTTTTTA CATTCTACTGCTTATATGATTCTCTATTCTTTTCCTTGTATGAGTTGTATATATAAATTGAGTT TCTGAACTCATTTTGTTTGTGTAGATGAATTGACATTTGATAGTATATAAATGTATCATTTACA TGATATATTTACCTGATTGTTTTTGATCTTTGTCTTATGTGAACTTATTTGGTTTTAGGTTCGC GTGGCTTCTGTAGAAGCACTTGGGCAGATGGTAGGTCTCATAACACGAACACAATTGAAGACTG CCCTACCAAGGCTTATTCCTACAATATTGGACTTGTAAGATTGATCAGTGCAAAGCATTTTATA TTTTAGTAGTTCTCTATTATTGTTATTTGATGAGTGCTTTATTCTTATTTAATGAGTGCTTTCT CATAAGATCAGAATATGAAAGATACTTATAATATCAACATGTATTATAGAATGGATTCATATTC ATCTTTTCTTCTGTCAGGTATAAAAAGGACCAAGATATAGCTTTTCTGGCTACATGTAGTCTCC ACAATCTTTTAAATGCCTCTTTACTGTCTGAAAGTGGCCCTCCTATGCTTGATTTTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.196811491

Conservation Information
Conserved circRNAs	NA
PMCS	0.196811491

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							44531695-44533612(+)
44531697-44532781(-)
						
						Potential amino acid sequence
						
							MMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKGVLSRILPILGNVRDMHRPIFANAF
KCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWAASRDLKVRVASVEALGQMVGLITR
TQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASLLSESGPPMLDFEELNSDWQRAATS
LLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKGVLSRILPILGNV
RDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWAASRDLKVRVASV
EALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASLLSESGPPMLDFE
ELNSDWQRAATSLLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKG
VLSRILPILGNVRDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWA
ASRDLKVRVASVEALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASL
LSESGPPMLDFEELNSDWQRAATSLLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFAS
TDPLQFIPHWKGVLSRILPILGNVRDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFL
NSAFELLLRVWAASRDLKVRVASVEALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLA
TCSLHNLLNASLLSESGPPMLDFE(+)
MRSGKCEPIATSRLVAARCQSEFSSSKSSIGGPLSDSKEAFKRLWRLHVARKAISWSFLYKSNI
VGISLGRAVFNCVRVMRPTICPSASTEATRTFKSLEAAQTLNKSSKAEFRNDMTSPSWGKCEGK
SILYCQAA*(-)
						
						Sponge-miRNAs
						
							gma-miR10422 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	44531695-44533612(+) 44531697-44532781(-)
Potential amino acid sequence	MMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKGVLSRILPILGNVRDMHRPIFANAF KCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWAASRDLKVRVASVEALGQMVGLITR TQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASLLSESGPPMLDFEELNSDWQRAATS LLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKGVLSRILPILGNV RDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWAASRDLKVRVASV EALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASLLSESGPPMLDFE ELNSDWQRAATSLLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFASTDPLQFIPHWKG VLSRILPILGNVRDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFLNSAFELLLRVWA ASRDLKVRVASVEALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLATCSLHNLLNASL LSESGPPMLDFEELNSDWQRAATSLLVAIGSHLPDLMMEEIYLHLSGANSALQSMVQILAEFAS TDPLQFIPHWKGVLSRILPILGNVRDMHRPIFANAFKCWCQAAWQYSIDFPSHFPQDGDVMSFL NSAFELLLRVWAASRDLKVRVASVEALGQMVGLITRTQLKTALPRLIPTILDLYKKDQDIAFLA TCSLHNLLNASLLSESGPPMLDFE(+) MRSGKCEPIATSRLVAARCQSEFSSSKSSIGGPLSDSKEAFKRLWRLHVARKAISWSFLYKSNI VGISLGRAVFNCVRVMRPTICPSASTEATRTFKSLEAAQTLNKSSKAEFRNDMTSPSWGKCEGK SILYCQAA*(-)
Sponge-miRNAs	gma-miR10422
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_19G186900_circ_g.1

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