Plant Circular RNA Database

Detail information of GLYMA_02G200700_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_02G200700_circ_g.1
					
						ID in PlantcircBase
						gma_circ_005565
					
						Alias
						gma-circRNA0199
					
						Organism
						
							Glycine max						
					
						Position
						
							chr2: 38438934-38441878  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_02G200700						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_02G200700_circ_g.2 GLYMA_02G200700_circ_g.3 GLYMA_02G200700_circ_g.4 						
					
						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
						KRH72249:3
KRH72246:3
KRH72244:3
KRH72253:3
KRH72245:3
KRH72250:3
KRH72248:3
KRH72252:3
KRH72251:3
KRH72247:3

General Information
CircRNA Name	GLYMA_02G200700_circ_g.1
ID in PlantcircBase	gma_circ_005565
Alias	gma-circRNA0199
Organism	Glycine max
Position	chr2: 38438934-38441878 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_02G200700
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_02G200700_circ_g.2 GLYMA_02G200700_circ_g.3 GLYMA_02G200700_circ_g.4
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	KRH72249:3 KRH72246:3 KRH72244:3 KRH72253:3 KRH72245:3 KRH72250:3 KRH72248:3 KRH72252:3 KRH72251:3 KRH72247:3

			
						 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  
						
							GTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGGTGGATTTCATTGGGTTCTTGGTCCACAAC
CCCTAGGTTTGGTGCAGACAGTTCAATATTATTTTCtggaagaagcatcaaaacaccaatagga
acaaccgaagccatgtcagtcaaggttcttttaagtgttttcctctccttctcagtcaattcat
cccctatc

									
								

					

						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: 444
Transcript exons: 38438934-38439104,38439359-38439484,38441732-38441878
TGGAAGAAGCATCAAAACACCAATAGGAACAACCGAAGCCATGTCAGTCAAGGTTCTTTTAAGT
GTTTTCCTCTCCTTCTCAGTCAATTCATCCCCTATCAATGCCCTTCTAAGTAAACCCATGGCAG
CAGCAACATCAATGGCGAGAAGCTGAGTTCCTTGCCAGACATCCGTTCCTGTTTCTTTTAGTTT
GCCAAAAGATTTTTCCAGGATATTTTCTTTCTTCTCAACCCTGGCCATCTGAATACCCCCAGCA
TCATCGCTATATGGGGCACCATCATCAATAACCAGTAAATCTTCATTATTTTCTGATTGATAGG
CACTTCTTTGAACTCGTTTCTCAAGTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGGTGGAT
TTCATTGGGTTCTTGGTCCACAACCCCTAGGTTTGGTGCAGACAGTTCAATATTATTTTC
						
					

						Genomic sequence
						
							TGGAAGAAGCATCAAAACACCAATAGGAACAACCGAAGCCATGTCAGTCAAGGTTCTTTTAAGT
GTTTTCCTCTCCTTCTCAGTCAATTCATCCCCTATCAATGCCCTTCTAAGTAAACCCATGGCAG
CAGCAACATCAATGGCGAGAAGCTGAGTTCCTTGCCAGACATCCTGCTTATTGAATATAAGATT
TCAGATCTCAGATGTTTACAAGACGTAACAGATGGCTTAATTTTAAATTTCAGGGGACATAGTC
AATATTATCAGAGACACTAATATATATTATGCCCACCAGTTTCTAGAGAAAACATGGGAGGGGG
GAAGTTGGTTTCATCTGATCAATGCCATAATGCAAATGAATTCATAAACCAAATAAAAGCAAGA
CAATCTTTCCAAGAAAGAAAAGCCACAAGACAAAAGCATACCGTTCCTGTTTCTTTTAGTTTGC
CAAAAGATTTTTCCAGGATATTTTCTTTCTTCTCAACCCTGGCCATCTGAATACCCCCAGCATC
ATCGCTATATGGGGCACCATCATCAATAACCAGTAAATCCTGTAAAAGCAATATTCAATGCTAA
ATACTCAAGGGAAAATAAACTTAATCAGAAGGACATACAGTGTTGGAATTAGGAGCATTCAATG
TTTATTACCCTTCCAAGTAGCTTAGTGTTTAGCTGAGTTTAATATATCTCAGGATTTTGTGATA
TTTTAAATTTTTAATTGTTCTCTTGAAAATAGTAGTTTATTTATTTTTATTTATTATCTTTGTA
ACCATTCTTATTATAAATCAATTAATCGATCAATCAAGCTCATAATGATTTAATTAATCTGGTT
GGTTTTAGCGTAATTGATGTTGATAAATGTTTTCAAAAAGTAAATTAATGTTTTAACGATTTTT
AGGTTAGATGAAGTTAAGTTTTAGGGCTTGATTAGTGAAAGTATTCATGTTTTGAATTGTTGAA
CATTGATTTTGTAATGTATAAATTGTTCTTGAAAGGTTTCGAGAAATTTAGAACAATGTAATAG
ATCACATGAATCTTGTAACAATTACAAAAACAGGGTAAATCCTAAGAAATTCTTTTCACTGTTT
TAATCAATTACAAGCCTATAGTATCAAGAGTTCAATTGTTCAAAAGAACAAGAAGTAAGAACTG
AGAACAATGATAACCTAACAAACTCTTGAATGATTTTGTTTAAATAGTCTGATGATCAAAATAA
TCGATTACCATCTTGTTTTAGTTTATTACATCAGTGTTTGGAACAGAAATACTAGCTTCATTTT
TTATTATTTTCGAAGCCGGATAGCTATATTAGTGATTATTATTTGTTGGCTTCATATAAACGAA
AAATTGAAGAGAGAAACTTGTTTTTACATCATTACAATTAAGTTTTGAAAGATTGATCAGCTCT
TATATTGACTCTCAAAGTTCAAGAAAAGTTCAAGAAAGATACTGAGTCTTCAATTTGAGTATCC
ATCACATGAAAGTGATTTTGTTTTGATCTTTTTGTAAGAAATGGTTCGAGAGTGGGGAATCTAT
CAAAGGGTAATAGCAGGTGAGGTATCCAACTTAGTTTTTCCTACTTGGTAAGGTATCCATGGTG
AATGCTTAGAAAGCTTAAAGAAAATGTGTTTTGCTAATACTTGCAAGAAATAGTGGAAAATCTC
ATAAAGGATCTGAGGATTGGATGTAGGTCAGTGGTAGTGATTGAACCAATATAAAAATCATTGG
TACATATTTTCTTATCCTTAAATTCTTTTATATTCAGTTTTCTTGAATAGTTTTGTGAATGTTA
TTGTGGTTTACATTGATTGAGGGTCATAATCGTATCATTGTGCACAAAATACATTCTCTAATCA
AAATCAATACATAACTCTGACTAAAATCATATTTGGAGGAATTGGACTAGTTTTTGTGAAAACT
CTAACAATCCAATTCACCTTCCCCTCAGATTGTTCATCCATTTGTCTAATTAGGAAGTTATTAT
TGTATTGATTTCATATGATGCAATTATGTGTTACAATGTTGATATTTATGGTAATATATAAGTT
GTATTACAGACTTGTAAAAGGCAATTAAGGTGTCAGATCGGTATTCCTCAAGTTTTGAAGGAGG
AAAGTGGACACTCCTTGCTGGGGAGAAACCCTGTGTTTGTACTCAAAACTGGCCTGAAAACCAG
ATTATTTTTATCATTATTCAGAATTCAGTGTGTTTATTTCTTGAGTCCAATACAAAGGATTCAA
ATATGAATTTTGAAACCTCAACACTTATACAAGAATCTATCAAGTTTGATATCCCTCATGTGTA
GATTGTCAGTGGTTGGCCTTTGTATCATTCGTGGATACAAAGACACTATATCAAGAGAAAGTAA
CTAGTGAAGCACAAGAAAGATGAATCATAGATAACAAAGAAAGGATGATCAAAACAACAAAACA
TGTATCCCAAGCCAAAAGTAACAGATTAGTTTCCAAAATCTATACTAGTTTATAGTTTTTCATC
AGCAACCTGCAAGATAAATTGCAAGCTAAAAACTTATAAATCAATAAGAAAATTTTAGGATAGT
AAAAGAATTAGTATGAGGCAGCAGTACAGGCAGGATAATTAACAGTGCAGTTACAAACAACAAA
GCCTTATCCCATTAGGTGAGATCAGATATATGGATCACACCTCACACAACACCATTTGGCACGG
TTAAAAACCAAATCTCCAGAGATATTATTTACCAATGCATTTACTAAGCAAAAATTTTGTAAGC
CATATAAAATCATAAACATGTAACTTATTGAATCTTTCAGACGTACTTCATTATTTTCTGATTG
ATAGGCACTTCTTTGAACTCGTTTCTCAAGTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGG
TGGATTTCATTGGGTTCTTGGTCCACAACCCCTAGGTTTGGTGCAGACAGTTCAATATTATTTT
C
						
					

			
		

Sequences
Splice junction sequence	GTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGGTGGATTTCATTGGGTTCTTGGTCCACAAC CCCTAGGTTTGGTGCAGACAGTTCAATATTATTTTCtggaagaagcatcaaaacaccaatagga acaaccgaagccatgtcagtcaaggttcttttaagtgttttcctctccttctcagtcaattcat cccctatc
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: 444 Transcript exons: 38438934-38439104,38439359-38439484,38441732-38441878 TGGAAGAAGCATCAAAACACCAATAGGAACAACCGAAGCCATGTCAGTCAAGGTTCTTTTAAGT GTTTTCCTCTCCTTCTCAGTCAATTCATCCCCTATCAATGCCCTTCTAAGTAAACCCATGGCAG CAGCAACATCAATGGCGAGAAGCTGAGTTCCTTGCCAGACATCCGTTCCTGTTTCTTTTAGTTT GCCAAAAGATTTTTCCAGGATATTTTCTTTCTTCTCAACCCTGGCCATCTGAATACCCCCAGCA TCATCGCTATATGGGGCACCATCATCAATAACCAGTAAATCTTCATTATTTTCTGATTGATAGG CACTTCTTTGAACTCGTTTCTCAAGTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGGTGGAT TTCATTGGGTTCTTGGTCCACAACCCCTAGGTTTGGTGCAGACAGTTCAATATTATTTTC
Genomic sequence	TGGAAGAAGCATCAAAACACCAATAGGAACAACCGAAGCCATGTCAGTCAAGGTTCTTTTAAGT GTTTTCCTCTCCTTCTCAGTCAATTCATCCCCTATCAATGCCCTTCTAAGTAAACCCATGGCAG CAGCAACATCAATGGCGAGAAGCTGAGTTCCTTGCCAGACATCCTGCTTATTGAATATAAGATT TCAGATCTCAGATGTTTACAAGACGTAACAGATGGCTTAATTTTAAATTTCAGGGGACATAGTC AATATTATCAGAGACACTAATATATATTATGCCCACCAGTTTCTAGAGAAAACATGGGAGGGGG GAAGTTGGTTTCATCTGATCAATGCCATAATGCAAATGAATTCATAAACCAAATAAAAGCAAGA CAATCTTTCCAAGAAAGAAAAGCCACAAGACAAAAGCATACCGTTCCTGTTTCTTTTAGTTTGC CAAAAGATTTTTCCAGGATATTTTCTTTCTTCTCAACCCTGGCCATCTGAATACCCCCAGCATC ATCGCTATATGGGGCACCATCATCAATAACCAGTAAATCCTGTAAAAGCAATATTCAATGCTAA ATACTCAAGGGAAAATAAACTTAATCAGAAGGACATACAGTGTTGGAATTAGGAGCATTCAATG TTTATTACCCTTCCAAGTAGCTTAGTGTTTAGCTGAGTTTAATATATCTCAGGATTTTGTGATA TTTTAAATTTTTAATTGTTCTCTTGAAAATAGTAGTTTATTTATTTTTATTTATTATCTTTGTA ACCATTCTTATTATAAATCAATTAATCGATCAATCAAGCTCATAATGATTTAATTAATCTGGTT GGTTTTAGCGTAATTGATGTTGATAAATGTTTTCAAAAAGTAAATTAATGTTTTAACGATTTTT AGGTTAGATGAAGTTAAGTTTTAGGGCTTGATTAGTGAAAGTATTCATGTTTTGAATTGTTGAA CATTGATTTTGTAATGTATAAATTGTTCTTGAAAGGTTTCGAGAAATTTAGAACAATGTAATAG ATCACATGAATCTTGTAACAATTACAAAAACAGGGTAAATCCTAAGAAATTCTTTTCACTGTTT TAATCAATTACAAGCCTATAGTATCAAGAGTTCAATTGTTCAAAAGAACAAGAAGTAAGAACTG AGAACAATGATAACCTAACAAACTCTTGAATGATTTTGTTTAAATAGTCTGATGATCAAAATAA TCGATTACCATCTTGTTTTAGTTTATTACATCAGTGTTTGGAACAGAAATACTAGCTTCATTTT TTATTATTTTCGAAGCCGGATAGCTATATTAGTGATTATTATTTGTTGGCTTCATATAAACGAA AAATTGAAGAGAGAAACTTGTTTTTACATCATTACAATTAAGTTTTGAAAGATTGATCAGCTCT TATATTGACTCTCAAAGTTCAAGAAAAGTTCAAGAAAGATACTGAGTCTTCAATTTGAGTATCC ATCACATGAAAGTGATTTTGTTTTGATCTTTTTGTAAGAAATGGTTCGAGAGTGGGGAATCTAT CAAAGGGTAATAGCAGGTGAGGTATCCAACTTAGTTTTTCCTACTTGGTAAGGTATCCATGGTG AATGCTTAGAAAGCTTAAAGAAAATGTGTTTTGCTAATACTTGCAAGAAATAGTGGAAAATCTC ATAAAGGATCTGAGGATTGGATGTAGGTCAGTGGTAGTGATTGAACCAATATAAAAATCATTGG TACATATTTTCTTATCCTTAAATTCTTTTATATTCAGTTTTCTTGAATAGTTTTGTGAATGTTA TTGTGGTTTACATTGATTGAGGGTCATAATCGTATCATTGTGCACAAAATACATTCTCTAATCA AAATCAATACATAACTCTGACTAAAATCATATTTGGAGGAATTGGACTAGTTTTTGTGAAAACT CTAACAATCCAATTCACCTTCCCCTCAGATTGTTCATCCATTTGTCTAATTAGGAAGTTATTAT TGTATTGATTTCATATGATGCAATTATGTGTTACAATGTTGATATTTATGGTAATATATAAGTT GTATTACAGACTTGTAAAAGGCAATTAAGGTGTCAGATCGGTATTCCTCAAGTTTTGAAGGAGG AAAGTGGACACTCCTTGCTGGGGAGAAACCCTGTGTTTGTACTCAAAACTGGCCTGAAAACCAG ATTATTTTTATCATTATTCAGAATTCAGTGTGTTTATTTCTTGAGTCCAATACAAAGGATTCAA ATATGAATTTTGAAACCTCAACACTTATACAAGAATCTATCAAGTTTGATATCCCTCATGTGTA GATTGTCAGTGGTTGGCCTTTGTATCATTCGTGGATACAAAGACACTATATCAAGAGAAAGTAA CTAGTGAAGCACAAGAAAGATGAATCATAGATAACAAAGAAAGGATGATCAAAACAACAAAACA TGTATCCCAAGCCAAAAGTAACAGATTAGTTTCCAAAATCTATACTAGTTTATAGTTTTTCATC AGCAACCTGCAAGATAAATTGCAAGCTAAAAACTTATAAATCAATAAGAAAATTTTAGGATAGT AAAAGAATTAGTATGAGGCAGCAGTACAGGCAGGATAATTAACAGTGCAGTTACAAACAACAAA GCCTTATCCCATTAGGTGAGATCAGATATATGGATCACACCTCACACAACACCATTTGGCACGG TTAAAAACCAAATCTCCAGAGATATTATTTACCAATGCATTTACTAAGCAAAAATTTTGTAAGC CATATAAAATCATAAACATGTAACTTATTGAATCTTTCAGACGTACTTCATTATTTTCTGATTG ATAGGCACTTCTTTGAACTCGTTTCTCAAGTTCTATTAGCTCATTTCGCAGAAGCTCAAAGCGG TGGATTTCATTGGGTTCTTGGTCCACAACCCCTAGGTTTGGTGCAGACAGTTCAATATTATTTT C

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.360424878

Conservation Information
Conserved circRNAs	NA
PMCS	0.360424878

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							38439429-38438936(-)
						
						Potential amino acid sequence
						
							MARVEKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTL
TDMASVVPIGVLMLLPENNIELSAPNLGVVDQEPNEIHRFELLRNELIELEKRVQRSAYQSENN
EDLLVIDDGAPYSDDAGGIQMARVEKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLR
RALIGDELTEKERKTLKRTLTDMASVVPIGVLMLLPENNIELSAPNLGVVDQEPNEIHRFELLR
NELIELEKRVQRSAYQSENNEDLLVIDDGAPYSDDAGGIQMARVEKKENILEKSFGKLKETGTD
VWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTLTDMASVVPIGVLMLLPENNIELSA
PNLGVVDQEPNEIHRFELLRNELIELEKRVQRSAYQSENNEDLLVIDDGAPYSDDAGGIQMARV
EKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTLTDMA
SVVPIGVLMLLP(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	38439429-38438936(-)
Potential amino acid sequence	MARVEKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTL TDMASVVPIGVLMLLPENNIELSAPNLGVVDQEPNEIHRFELLRNELIELEKRVQRSAYQSENN EDLLVIDDGAPYSDDAGGIQMARVEKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLR RALIGDELTEKERKTLKRTLTDMASVVPIGVLMLLPENNIELSAPNLGVVDQEPNEIHRFELLR NELIELEKRVQRSAYQSENNEDLLVIDDGAPYSDDAGGIQMARVEKKENILEKSFGKLKETGTD VWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTLTDMASVVPIGVLMLLPENNIELSA PNLGVVDQEPNEIHRFELLRNELIELEKRVQRSAYQSENNEDLLVIDDGAPYSDDAGGIQMARV EKKENILEKSFGKLKETGTDVWQGTQLLAIDVAAAMGLLRRALIGDELTEKERKTLKRTLTDMA SVVPIGVLMLLP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_02G200700_circ_g.1

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