Plant Circular RNA Database

Detail information of GLYMA_09G259000_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_09G259000_circ_g.1
					
						ID in PlantcircBase
						gma_circ_002483
					
						Alias
						Gm09circRNA924
					
						Organism
						
							Glycine max						
					
						Position
						
							chr9: 47756976-47759777  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_09G259000						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_09G259000_circ_g.2 GLYMA_09G259000_circ_g.3 GLYMA_09G259000_circ_g.4 						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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
						KRH40446:6
KRH40447:6

General Information
CircRNA Name	GLYMA_09G259000_circ_g.1
ID in PlantcircBase	gma_circ_002483
Alias	Gm09circRNA924
Organism	Glycine max
Position	chr9: 47756976-47759777 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_09G259000
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_09G259000_circ_g.2 GLYMA_09G259000_circ_g.3 GLYMA_09G259000_circ_g.4
Support reads	NA
Tissues	leaf, root
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	KRH40446:6 KRH40447:6

			
						 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  
						
							TAGCATGTTTTTCTTTTGATTCTAATGTAGGGCCAAATCTTGCACCAACGCCAACATACTCAAA
GCTTTCCACACCATCAATCCAAGTAGGGACTTTAACcatgacaacagagccaccaagcaagttt
gtagtccctgaaaacacatgaagaataaagattcattcagctgctatattcaacaataacatca
tgttgcac

									
								

					

						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
						
							CATGACAACAGAGCCACCAAGCAAGTTTGTAGTCCCTGAAAACACATGAAGAATAAAGATTCAT
TCAGCTGCTATATTCAACAATAACATCATGTTGCACATTGAAACCTGTGATCTAGGAAGCACAG
ATACAATACAATAAAAACATAGGAATTCAGCAAATTTTAAAAATTATAGGGCATGACACAGTTA
TAATATATAAAATTAATCAAAAGGTAACACAATATATATATATATATATATATATATATATAAA
AAAAAAAATAAGAGAGAATTTCTGTTTTAAAATGAGCATAAGTCATTATAAACATAATTAAATA
TATGATTTTATCTAATTATTGTGGTATTTTAATATCGAAAATATAAAAATGCAATTTAAAGTTT
TTTAAGTGTTCATGCAGTAACTGATGTGAATACATATCTGACATGGTTATGACATGACACAGCC
ACAATTTAGGAGTATCCATGCTTCTTAGCCTATGACTATAGTTTTGTTGTGTGAACCGTAAATT
AAGGCATAATGTGGTATTTCAGCAATAATGATGTAATGTGCCTTAACCCCAACTATAAAAGACA
TGACGTGATTTTCAATATAGCAGCAAGTTAGACAAACTCTATAGAAAGGAATAAGAAGGATAAA
AATTATTGAAACCAGGACTTTTTCAAAAAAAAAAAAAATTATTTTCCATTCCCTACTTTATTTT
CTATTAAAACCAAAACCAAACCTGACCTAGGCCTAATGTCACTTTTTTGGATAGGAAATTGTTA
TTAAGAGTACAATAAATGAGGATTAGACATCCTCACAAGAACATTACAAATGGCAAGTGTGTTT
GGATTGATGAAAAGGAGCAAAACAGAATTGAATGCAATATATTCAATCTAATTCCCTCCATCCT
ATTCCATTCTCCGTTAGATATGCAAATATAGGCATGCCAGTCTCTATTCAAGTCTAACAAAGAA
ACATCTGCAAATATAGGCATGTCAGTCTCTATTCAAGTCTAACAAAGAAACATCTCTAAAGAGA
TCGTGAGCAGAATGACACACAGAAGATTTAAAAAAGTGCCACGTGATTGGAAAGTGAATTGGGG
TAGATGTGAAGGAAGCAAAATGTTGTTAGGATACACAGGTGAAACTCTAATTAACCACCCAATA
TTTTGCACGCCCTAAAGATGACAAATAATTATCAGAAAAGCATAGGAATATGGCTGATCAGTAA
ATCAGTTAGAGGGAGGCCAAAGGAAGAATCATAATCAACAAGAATCAAGCTTGGAAAAATAATA
ACTCACCTCAACCCCACCAATGCAAAATAGAACCACCAGAACTTCAACAAACCAATATGCCATT
AATTTGTAAAGCATAACCAAGAAACAAGAAGCAATCACAACAAATGATATTGCTGCTGCAGTAC
TGATTTCCACATATGCACTAGAACCAGCATTCTCTGCATTTACGTATTCATCTGAAGCATCCTG
CAATATAAATGTTCTATATGTTAGTAATAGTAATTGGACCAATGAGTTTTTTTTTATTATTTAA
TTTGAGAAGGAAGTTCGTTTACAAAGAACAAAATTAGTTCATTTCAAAAAAGAGAATAACTTTT
GTTAAGGAAGCCTCCACGACAGGAGGTCTGCAAGAAACACAGGCACTTCATTTTTTTGAATAAG
CCATGGGTCTTTGTTAACTTATGTATTCCATCGATCACCAATAATATTTGTCTTGTATAAGGAA
AAATTCGTAAAATTGGGATGAAAAGAAACCAGTAACCTTTAATAGCTTCTCCTGCTCAATGGCA
GACTCTCTTGCTGACCAGGCAGACCAGTAAGAAGCACAGAGAATGGTACCAACAGCCATAAGCC
ATAAAAACACTTCTGCAACATCAACCAATGGACGCAATGGAGAATACAACTGCACCGACACTTG
AGAGTGGACATACATGCAGAAATGCAAAGAATAATCATATAAAGAATCAAAATATAAAGTAGTT
ATTTCAAATTTTGCTGTGACAAATGAAAGCCATACTAATCACAAAAGAATAGATACATATTCAC
AGAGAAAGTGAAATATACCTACTGAATTGTTTAGTATGTGATTTTTCAAGTTTTCACCAGCATC
TTGTGGAAGCATGACAGCAGGTATTCCAATATCAACATCGGTTTCATTTGCTTCACAAACCATC
TTGAAAAGTTCTGCATAAAAAGGACAAAAAATAGTTGCTTAAAACAAACAAAATACGCAGTATT
GGACAATGTCTGTTTATTATAACAAACAAGAAACCAAAGTTAATTAGCATTCTCTATGAAACAC
GGGATCATATCAATTTTAACTGTAAAATGCGTATAGAGAGAAAGGAAGTGACACAGATTATAGG
TCCAAAAAAGCAAAAATTGCAGGCAAACACCTGTACGATAATTTATAATGAGGATGGCTGAAGC
ACCAGCTTCTTCAGCTATATTTGCCTTGATTGTGAAACTACACTGTCCTCGGTGCACCAAAATG
ATCTCGCCAGTGAGCTAACAAATTGCAAGGCACTCCATATTACTTACTAATAAATATCTAAACA
AATTAGAGCTGTTAAACCTAAACATCTATGCATCACATGCAGAGAAGTTGCATTTGGTTAGTTC
TAAAGCATAGAATCAATACCTTATTATTAGGCTTGCTACAACAATCAGGAGGGTCCGCAATCGC
AACTCTAGTATGGTTAGCATGTTTTTCTTTTGATTCTAATGTAGGGCCAAATCTTGCACCAACG
CCAACATACTCAAAGCTTTCCACACCATCAATCCAAGTAGGGACTTTAAC
						
					

			
		

Sequences
Splice junction sequence	TAGCATGTTTTTCTTTTGATTCTAATGTAGGGCCAAATCTTGCACCAACGCCAACATACTCAAA GCTTTCCACACCATCAATCCAAGTAGGGACTTTAACcatgacaacagagccaccaagcaagttt gtagtccctgaaaacacatgaagaataaagattcattcagctgctatattcaacaataacatca tgttgcac
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	CATGACAACAGAGCCACCAAGCAAGTTTGTAGTCCCTGAAAACACATGAAGAATAAAGATTCAT TCAGCTGCTATATTCAACAATAACATCATGTTGCACATTGAAACCTGTGATCTAGGAAGCACAG ATACAATACAATAAAAACATAGGAATTCAGCAAATTTTAAAAATTATAGGGCATGACACAGTTA TAATATATAAAATTAATCAAAAGGTAACACAATATATATATATATATATATATATATATATAAA AAAAAAAATAAGAGAGAATTTCTGTTTTAAAATGAGCATAAGTCATTATAAACATAATTAAATA TATGATTTTATCTAATTATTGTGGTATTTTAATATCGAAAATATAAAAATGCAATTTAAAGTTT TTTAAGTGTTCATGCAGTAACTGATGTGAATACATATCTGACATGGTTATGACATGACACAGCC ACAATTTAGGAGTATCCATGCTTCTTAGCCTATGACTATAGTTTTGTTGTGTGAACCGTAAATT AAGGCATAATGTGGTATTTCAGCAATAATGATGTAATGTGCCTTAACCCCAACTATAAAAGACA TGACGTGATTTTCAATATAGCAGCAAGTTAGACAAACTCTATAGAAAGGAATAAGAAGGATAAA AATTATTGAAACCAGGACTTTTTCAAAAAAAAAAAAAATTATTTTCCATTCCCTACTTTATTTT CTATTAAAACCAAAACCAAACCTGACCTAGGCCTAATGTCACTTTTTTGGATAGGAAATTGTTA TTAAGAGTACAATAAATGAGGATTAGACATCCTCACAAGAACATTACAAATGGCAAGTGTGTTT GGATTGATGAAAAGGAGCAAAACAGAATTGAATGCAATATATTCAATCTAATTCCCTCCATCCT ATTCCATTCTCCGTTAGATATGCAAATATAGGCATGCCAGTCTCTATTCAAGTCTAACAAAGAA ACATCTGCAAATATAGGCATGTCAGTCTCTATTCAAGTCTAACAAAGAAACATCTCTAAAGAGA TCGTGAGCAGAATGACACACAGAAGATTTAAAAAAGTGCCACGTGATTGGAAAGTGAATTGGGG TAGATGTGAAGGAAGCAAAATGTTGTTAGGATACACAGGTGAAACTCTAATTAACCACCCAATA TTTTGCACGCCCTAAAGATGACAAATAATTATCAGAAAAGCATAGGAATATGGCTGATCAGTAA ATCAGTTAGAGGGAGGCCAAAGGAAGAATCATAATCAACAAGAATCAAGCTTGGAAAAATAATA ACTCACCTCAACCCCACCAATGCAAAATAGAACCACCAGAACTTCAACAAACCAATATGCCATT AATTTGTAAAGCATAACCAAGAAACAAGAAGCAATCACAACAAATGATATTGCTGCTGCAGTAC TGATTTCCACATATGCACTAGAACCAGCATTCTCTGCATTTACGTATTCATCTGAAGCATCCTG CAATATAAATGTTCTATATGTTAGTAATAGTAATTGGACCAATGAGTTTTTTTTTATTATTTAA TTTGAGAAGGAAGTTCGTTTACAAAGAACAAAATTAGTTCATTTCAAAAAAGAGAATAACTTTT GTTAAGGAAGCCTCCACGACAGGAGGTCTGCAAGAAACACAGGCACTTCATTTTTTTGAATAAG CCATGGGTCTTTGTTAACTTATGTATTCCATCGATCACCAATAATATTTGTCTTGTATAAGGAA AAATTCGTAAAATTGGGATGAAAAGAAACCAGTAACCTTTAATAGCTTCTCCTGCTCAATGGCA GACTCTCTTGCTGACCAGGCAGACCAGTAAGAAGCACAGAGAATGGTACCAACAGCCATAAGCC ATAAAAACACTTCTGCAACATCAACCAATGGACGCAATGGAGAATACAACTGCACCGACACTTG AGAGTGGACATACATGCAGAAATGCAAAGAATAATCATATAAAGAATCAAAATATAAAGTAGTT ATTTCAAATTTTGCTGTGACAAATGAAAGCCATACTAATCACAAAAGAATAGATACATATTCAC AGAGAAAGTGAAATATACCTACTGAATTGTTTAGTATGTGATTTTTCAAGTTTTCACCAGCATC TTGTGGAAGCATGACAGCAGGTATTCCAATATCAACATCGGTTTCATTTGCTTCACAAACCATC TTGAAAAGTTCTGCATAAAAAGGACAAAAAATAGTTGCTTAAAACAAACAAAATACGCAGTATT GGACAATGTCTGTTTATTATAACAAACAAGAAACCAAAGTTAATTAGCATTCTCTATGAAACAC GGGATCATATCAATTTTAACTGTAAAATGCGTATAGAGAGAAAGGAAGTGACACAGATTATAGG TCCAAAAAAGCAAAAATTGCAGGCAAACACCTGTACGATAATTTATAATGAGGATGGCTGAAGC ACCAGCTTCTTCAGCTATATTTGCCTTGATTGTGAAACTACACTGTCCTCGGTGCACCAAAATG ATCTCGCCAGTGAGCTAACAAATTGCAAGGCACTCCATATTACTTACTAATAAATATCTAAACA AATTAGAGCTGTTAAACCTAAACATCTATGCATCACATGCAGAGAAGTTGCATTTGGTTAGTTC TAAAGCATAGAATCAATACCTTATTATTAGGCTTGCTACAACAATCAGGAGGGTCCGCAATCGC AACTCTAGTATGGTTAGCATGTTTTTCTTTTGATTCTAATGTAGGGCCAAATCTTGCACCAACG CCAACATACTCAAAGCTTTCCACACCATCAATCCAAGTAGGGACTTTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.018340209

Conservation Information
Conserved circRNAs	NA
PMCS	0.018340209

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							47759392-47758332(+)
47759152-47759701(-)
47756980-47759701(-)
						
						Potential amino acid sequence
						
							MRMAEAPASSAIFALIVKLHCPRCTKMISPVSLLLGLLQQSGGSAIATLVWLACFSFDSNVGPN
LAPTPTYSKLSTPSIQVGTLTMTTEPPSKFVVPQPHQCKIEPPELQQTNMPLICKA*(+)
MVCEANETDVDIGIPAVMLPQDAGENLKNHILNNSVVSVQLYSPLRPLVDVAEVFLWLMAVGTI
LCASYWSAWSARESAIEQEKLLKDASDEYVNAENAGSSAYVEISTAAAISFVVIASCFLVMLYK
LMAYWFVEVLVVLFCIGGVEGLQTCLVALLSWLKSLLGLMVWKALSMLALVQDLALH*(-)
MVKVPTWIDGVESFEYVGVGARFGPTLESKEKHANHTRVAIADPPDCCSKPNNKLTGEIILVHR
GQCSFTIKANIAEEAGASAILIINYRTELFKMVCEANETDVDIGIPAVMLPQDAGENLKNHILN
NSVVSVQLYSPLRPLVDVAEVFLWLMAVGTILCASYWSAWSARESAIEQEKLLKDASDEYVNAE
NAGSSAYVEISTAAAISFVVIASCFLVMLYKLMAYWFVEVLVVLFCIGGVEGLQTCLVALLSWL
KSLLGLMVWKALSMLALVQDLALH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	47759392-47758332(+) 47759152-47759701(-) 47756980-47759701(-)
Potential amino acid sequence	MRMAEAPASSAIFALIVKLHCPRCTKMISPVSLLLGLLQQSGGSAIATLVWLACFSFDSNVGPN LAPTPTYSKLSTPSIQVGTLTMTTEPPSKFVVPQPHQCKIEPPELQQTNMPLICKA(+) MVCEANETDVDIGIPAVMLPQDAGENLKNHILNNSVVSVQLYSPLRPLVDVAEVFLWLMAVGTI LCASYWSAWSARESAIEQEKLLKDASDEYVNAENAGSSAYVEISTAAAISFVVIASCFLVMLYK LMAYWFVEVLVVLFCIGGVEGLQTCLVALLSWLKSLLGLMVWKALSMLALVQDLALH(-) MVKVPTWIDGVESFEYVGVGARFGPTLESKEKHANHTRVAIADPPDCCSKPNNKLTGEIILVHR GQCSFTIKANIAEEAGASAILIINYRTELFKMVCEANETDVDIGIPAVMLPQDAGENLKNHILN NSVVSVQLYSPLRPLVDVAEVFLWLMAVGTILCASYWSAWSARESAIEQEKLLKDASDEYVNAE NAGSSAYVEISTAAAISFVVIASCFLVMLYKLMAYWFVEVLVVLFCIGGVEGLQTCLVALLSWL KSLLGLMVWKALSMLALVQDLALH*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_09G259000_circ_g.1

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