Plant Circular RNA Database

Detail information of GLYMA_15G086900_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_15G086900_circ_g.1
					
						ID in PlantcircBase
						gma_circ_007182
					
						Alias
						gma-circRNA2172
					
						Organism
						
							Glycine max						
					
						Position
						
							chr15: 6660814-6661597  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_15G086900						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						KRH11072:2

General Information
CircRNA Name	GLYMA_15G086900_circ_g.1
ID in PlantcircBase	gma_circ_007182
Alias	gma-circRNA2172
Organism	Glycine max
Position	chr15: 6660814-6661597 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_15G086900
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	NA
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	KRH11072:2

			
						 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  
						
							TAACCCCCACTCCTACTTTGACCACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGC
ATCTGGAATTGACTTCTCGAGCTTTAGAAAACCTATctttactgcagttgtaggtataacaagc
agcatagccaccatcaccagctcgaacatcagctttaactgacctaccaacaaagcctactgca
gcactcaa

						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: 397
Transcript exons: 6660814-6661009,6661397-6661597
CTTTACTGCAGTTGTAGGTATAACAAGCAGCATAGCCACCATCACCAGCTCGAACATCAGCTTT
AACTGACCTACCAACAAAGCCTACTGCAGCACTCAAACCTGCTCCAAGTGAAAGATGCATATTG
CCACCAAATGTCTTGACAGCATCATTTGTTCTCAAAACAATGATGAAGTCTGTCAACTCGCCTC
CAGCCTGAGCCCCCCACCCTACACCAAAGGTGGAAACAGCAGATGGAGGAGACCATGAACCGTC
TTCCCTACGGGCAACCACAAGTCCTGTTCCAATATTGTAAGTAACCCCCACTCCTACTTTGACC
ACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGCATCTGGAATTGACTTCTCGAGCT
TTAGAAAACCTAT
						
						Genomic sequence
						
							CTTTACTGCAGTTGTAGGTATAACAAGCAGCATAGCCACCATCACCAGCTCGAACATCAGCTTT
AACTGACCTACCAACAAAGCCTACTGCAGCACTCAAACCTGCTCCAAGTGAAAGATGCATATTG
CCACCAAATGTCTTGACAGCATCATTTGTTCTCAAAACAATGATGAAGTCTGTCAACTCGCCTC
CAGCCTATGCAGTTAAAGAAATAAATCAACACTTCAGAATATATAGAAATAAATAAATATCAAT
AAAACCTGGAGACGGGCCACATATGTATGGAGTAGGAAGTCAGAACCAATGCTTGGTACAGTTG
AGGAGTAAACAGAATAATATTAAAATGAAGATCCGTGTGGAAACTTAGCTATTGCATAACATAT
ATTTCGGTAAATTTCATCAGAAGTAACTATGAAATTCTAGAGTCCAACAAAATAAAATGTTCTA
GTATTACAGTTGACTGGAAACAGTATGCACAGCATATAGTGATAGATTTTTGGCAATTGATCCA
TAGTCATTCACAAGCAAAGTCATTAGTAATTGCCCTGTTTGGCCAATATTGTTAAAGATTAGTT
ACTTCACCTGAGCCCCCCACCCTACACCAAAGGTGGAAACAGCAGATGGAGGAGACCATGAACC
GTCTTCCCTACGGGCAACCACAAGTCCTGTTCCAATATTGTAAGTAACCCCCACTCCTACTTTG
ACCACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGCATCTGGAATTGACTTCTCGA
GCTTTAGAAAACCTAT

Sequences
Splice junction sequence	TAACCCCCACTCCTACTTTGACCACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGC ATCTGGAATTGACTTCTCGAGCTTTAGAAAACCTATctttactgcagttgtaggtataacaagc agcatagccaccatcaccagctcgaacatcagctttaactgacctaccaacaaagcctactgca gcactcaa
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: 397 Transcript exons: 6660814-6661009,6661397-6661597 CTTTACTGCAGTTGTAGGTATAACAAGCAGCATAGCCACCATCACCAGCTCGAACATCAGCTTT AACTGACCTACCAACAAAGCCTACTGCAGCACTCAAACCTGCTCCAAGTGAAAGATGCATATTG CCACCAAATGTCTTGACAGCATCATTTGTTCTCAAAACAATGATGAAGTCTGTCAACTCGCCTC CAGCCTGAGCCCCCCACCCTACACCAAAGGTGGAAACAGCAGATGGAGGAGACCATGAACCGTC TTCCCTACGGGCAACCACAAGTCCTGTTCCAATATTGTAAGTAACCCCCACTCCTACTTTGACC ACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGCATCTGGAATTGACTTCTCGAGCT TTAGAAAACCTAT
Genomic sequence	CTTTACTGCAGTTGTAGGTATAACAAGCAGCATAGCCACCATCACCAGCTCGAACATCAGCTTT AACTGACCTACCAACAAAGCCTACTGCAGCACTCAAACCTGCTCCAAGTGAAAGATGCATATTG CCACCAAATGTCTTGACAGCATCATTTGTTCTCAAAACAATGATGAAGTCTGTCAACTCGCCTC CAGCCTATGCAGTTAAAGAAATAAATCAACACTTCAGAATATATAGAAATAAATAAATATCAAT AAAACCTGGAGACGGGCCACATATGTATGGAGTAGGAAGTCAGAACCAATGCTTGGTACAGTTG AGGAGTAAACAGAATAATATTAAAATGAAGATCCGTGTGGAAACTTAGCTATTGCATAACATAT ATTTCGGTAAATTTCATCAGAAGTAACTATGAAATTCTAGAGTCCAACAAAATAAAATGTTCTA GTATTACAGTTGACTGGAAACAGTATGCACAGCATATAGTGATAGATTTTTGGCAATTGATCCA TAGTCATTCACAAGCAAAGTCATTAGTAATTGCCCTGTTTGGCCAATATTGTTAAAGATTAGTT ACTTCACCTGAGCCCCCCACCCTACACCAAAGGTGGAAACAGCAGATGGAGGAGACCATGAACC GTCTTCCCTACGGGCAACCACAAGTCCTGTTCCAATATTGTAAGTAACCCCCACTCCTACTTTG ACCACAGTGATAATTGCAAGGCCTTTTGCTTGTCTTAGAATGGCATCTGGAATTGACTTCTCGA GCTTTAGAAAACCTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249038308

Conservation Information
Conserved circRNAs	NA
PMCS	0.249038308

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6661558-6660880(+)
6660939-6661463(-)
6660872-6661463(-)
						
						Potential amino acid sequence
						
							MASGIDFSSFRKPIFTAVVGITSSIATITSSNISFN*(+)
MHLSLGAGLSAAVGFVGRSVKADVRAGDGGYAACYTYNCSKDRFSKAREVNSRCHSKTSKRPCN
YHCGQSRSGGYLQYWNRTCGCP*(-)
MFELVMVAMLLVIPTTAVKIGFLKLEKSIPDAILRQAKGLAIITVVKVGVGVTYNIGTGLVVAR
REDGSWSPPSAVSTFGVGWGAQAGGELTDFIIVLRTNDAVKTFGGNMHLSLGAGLSAAVGFVGR
SVKADVRAGDGGYAACYTYNCSKDRFSKAREVNSRCHSKTSKRPCNYHCGQSRSGGYLQYWNRT
CGCP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6661558-6660880(+) 6660939-6661463(-) 6660872-6661463(-)
Potential amino acid sequence	MASGIDFSSFRKPIFTAVVGITSSIATITSSNISFN(+) MHLSLGAGLSAAVGFVGRSVKADVRAGDGGYAACYTYNCSKDRFSKAREVNSRCHSKTSKRPCN YHCGQSRSGGYLQYWNRTCGCP(-) MFELVMVAMLLVIPTTAVKIGFLKLEKSIPDAILRQAKGLAIITVVKVGVGVTYNIGTGLVVAR REDGSWSPPSAVSTFGVGWGAQAGGELTDFIIVLRTNDAVKTFGGNMHLSLGAGLSAAVGFVGR SVKADVRAGDGGYAACYTYNCSKDRFSKAREVNSRCHSKTSKRPCNYHCGQSRSGGYLQYWNRT CGCP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_15G086900_circ_g.1

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