Plant Circular RNA Database

Detail information of GLYMA_20G185300_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_20G185300_circ_g.1
					
						ID in PlantcircBase
						gma_circ_007798
					
						Alias
						gma-circRNA2793
					
						Organism
						
							Glycine max						
					
						Position
						
							chr20: 42360630-42363315  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_20G185300						
					
						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  
						
							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
						KRG92008:4

General Information
CircRNA Name	GLYMA_20G185300_circ_g.1
ID in PlantcircBase	gma_circ_007798
Alias	gma-circRNA2793
Organism	Glycine max
Position	chr20: 42360630-42363315 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_20G185300
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	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	KRG92008:4

			
						 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  
						
							TGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGAAGGAACCGACCAGAGAGTTTTTGATT
CTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAGgtgaaagccgatgtggaaacacagggtg
actttgtcatctccttggcaactgaagttagagcagcctcgttctctaagattgaagatctggt
ggcttttg

									
								

					

						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: 570
Transcript exons: 42360630-42360761,42361035-42361216,42362281-42362392,42
363172-42363315
GTGAAAGCCGATGTGGAAACACAGGGTGACTTTGTCATCTCCTTGGCAACTGAAGTTAGAGCAG
CCTCGTTCTCTAAGATTGAAGATCTGGTGGCTTTTGTGAACTGGCTAGATGAGGAACTTTCCTT
CTTGGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAACAGATGCAATG
AGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAGAGAAGCAAGTCTCCACCTTCACTG
ATGATCCCAAACTCCCATGTCAAACTGCTTTGCAGAAAATGTACTCGTTGCTTGAAAAAGTGGA
GCAAAGCATATATGCACTCTTACGGACAAGAGATATGGCTATTTCAAGGTACAAAGAGTTTGGA
ATACCAGTAACTTGGCTATTAGATACAGGACTTGTGGGCAAGATCAAGCTTTCTTCTGTGCAAC
TGGCAAACATGTATATGAAACGTGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGAAGGA
ACCGACCAGAGAGTTTTTGATTCTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAG
						
					

						Genomic sequence
						
							GTGAAAGCCGATGTGGAAACACAGGGTGACTTTGTCATCTCCTTGGCAACTGAAGTTAGAGCAG
CCTCGTTCTCTAAGATTGAAGATCTGGTGGCTTTTGTGAACTGGCTAGATGAGGAACTTTCCTT
CTTGGTAAGTGTTAGTGTCATTTCTCCTCCATCATTAACAAGCTTCTAAAAACAAATTCATATA
GATTGTAGATCTTGGGAGAAGGCATGGAAGTGTATCCTTTGTGCTGTTTTTCCTCATAAATTGC
ATTCCTTTTTATTCAAAATTAGGTCATTCACTTTGACCTCACATTCTCAGCTTTCATGCATATG
AAAAAAAGGGCTAATTTCCTCCTTTGCAACTTTACATCCAATGGCTTCTGCATTTTATTCATCT
CATTTTATTCCTTTATATAAGGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAG
GGAAAACAGATGCAATGAGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAGAGAAGCA
AGTCTCCACCTTCACTGATGATCCCAAACTCCCATGTCAAACTGCTTTGCAGAAAATGTACTCG
TTGCTTGAAAAGTAAGCATCATTGTTTATGTTAGTTTTATGTATCATAAATATATATTTTTTTT
ATCGGCAAAAATAATTATATATATATAATAGAATTGGAGTACCAGAGGTACTTTGTACAAAGAT
AGGATTCCATAAACATGGTTCCTCAGTGAAACTGATATAGTTTGATTAGGAACCATATTGTGGC
TACATATTTAATATACAGCTGCTAAATACCAATCAAAAACTACCCTCTACTGATACAAAAAGCC
TTGTCGAATATGGCTTGACCAGTGATTAAAGTGCAGTGTGAAATCTTTCTCCAAGTTTCTAAGC
CAAGTCCAAATTAAAAACATTGCATCCTCAACCAGCTTGTTGCCATTGAAAATTGCATTAGAGA
ATATAATTCTGTTGTGCATCTGCCAAATGGACCTTACCACAGCCAGCCACCAACATTGCCATCT
CTTTACCCTTATACCATCCACCTGAACAGATGAGTGTTGGAGGAAATGACATATGGGAAGAGCA
CTTGTAATATTCATCCAAGACATGGTTTCCCACCAAATGGGCAGGATTTTTATGCAATGAATGA
ATAAATGGGATGCCTCCTCCTCCACACTACCACAGAAAGGACATGTTAAATCCCTGATCGGCAC
TTGTCTCCTCTGCAGATTTATCATAAATATTAGATTAGGAAGTCAACCCTTGGTGGATATTTTC
TTGAGAACTCAATCTAGAATGACTTTTATCGAAATAGAATATAAACTATTTTCTGATGTCTACT
TAAATGCTGTAGATTCAGACATTTCAAGTCACAAATATAGAATGCAACATACACTTGTTTAGTT
TGATGTTTCTTGGTGTATGTGTTCCTTGCTATTGGAAATGGAATATAACCTATTTTCTGATGTC
TACTTAAATGGTGTAGATTCAGACATTTCATGTTTTAAATATAGAATGCAGCATATACTTGTTT
AGTTTGATGTTTCTTGGTGTATGCGTTCCTTGCTATTCTCTATAGATATAGCATGAACTCATGA
AGCTTATTTATCAATTCATCTATTTCCATCTTGCTCTATTTTTACTTCCAGAGTGGAGCAAAGC
ATATATGCACTCTTACGGACAAGAGATATGGCTATTTCAAGGTACAAAGAGTTTGGAATACCAG
TAACTTGGCTATTAGATACAGGACTTGTGGGCAAGGTATGCTTCTAAACTTAAAGAATCCATTT
GGGTTCTAGTTAACACAAAGGACTTGTTCATTGAAGAAGGTGTTTTCTTTTTATACCTGTTGGG
CTTGAAAATTTTGTATTTGGTTACAACTTGTTGATACCCCAGCCCCCTATACCGCAATGATTTA
TATCATTCCCTTAAAAGGCATAAGGCTTCATTATGAAATCTTGTAACTGTATGTTTTTTCCCTT
TGTACTTTACTTTTTCTCTCCCCCTAAACTTTTGCAATTTTATTTAGAACACCTCAAAAAAGAC
CTTCTTGGAAAATCCAATTCTATCATGCCTTCAATAGTAGCCTGTTTGCCAATATTACACAATT
GTTTACGTATTGTAACAGACATGCATACTCTGAAAGTATAGGGATTCGATGGATAGGTAGGGAG
AAAAATAATAGAATTTACTTAACTGATAGGACTTTGAATAGTTTGTTTTGTTTTGTTTTGATGA
TATAGAACATTGAATACTTCTAGTGATACTGATATTCCAAGTATAGTTACAAGTGTATTTCATA
TAGTACAAGTCAAACGACTCAAACCCACTAACGATTCCCTTCAAGCTAAAATCAGCTAGTTACT
CGTCTAATAGTAAGAATATCACAAGTAAACAAAATAGACAAAAAAGTAAACTTAAAAATATAAT
AACAAGGGCATGCCTTTGCTGTTATGACCTTGCATTGATGTCTGCTTCTGTTTGAAGCTAACAA
ATGGTCACTTAATTAGTAGTTGCTACTGGTAACTCTACCATTGCAGATCAAGCTTTCTTCTGTG
CAACTGGCAAACATGTATATGAAACGTGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGA
AGGAACCGACCAGAGAGTTTTTGATTCTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAG
						
					

			
		

Sequences
Splice junction sequence	TGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGAAGGAACCGACCAGAGAGTTTTTGATT CTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAGgtgaaagccgatgtggaaacacagggtg actttgtcatctccttggcaactgaagttagagcagcctcgttctctaagattgaagatctggt ggcttttg
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: 570 Transcript exons: 42360630-42360761,42361035-42361216,42362281-42362392,42 363172-42363315 GTGAAAGCCGATGTGGAAACACAGGGTGACTTTGTCATCTCCTTGGCAACTGAAGTTAGAGCAG CCTCGTTCTCTAAGATTGAAGATCTGGTGGCTTTTGTGAACTGGCTAGATGAGGAACTTTCCTT CTTGGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAACAGATGCAATG AGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAGAGAAGCAAGTCTCCACCTTCACTG ATGATCCCAAACTCCCATGTCAAACTGCTTTGCAGAAAATGTACTCGTTGCTTGAAAAAGTGGA GCAAAGCATATATGCACTCTTACGGACAAGAGATATGGCTATTTCAAGGTACAAAGAGTTTGGA ATACCAGTAACTTGGCTATTAGATACAGGACTTGTGGGCAAGATCAAGCTTTCTTCTGTGCAAC TGGCAAACATGTATATGAAACGTGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGAAGGA ACCGACCAGAGAGTTTTTGATTCTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAG
Genomic sequence	GTGAAAGCCGATGTGGAAACACAGGGTGACTTTGTCATCTCCTTGGCAACTGAAGTTAGAGCAG CCTCGTTCTCTAAGATTGAAGATCTGGTGGCTTTTGTGAACTGGCTAGATGAGGAACTTTCCTT CTTGGTAAGTGTTAGTGTCATTTCTCCTCCATCATTAACAAGCTTCTAAAAACAAATTCATATA GATTGTAGATCTTGGGAGAAGGCATGGAAGTGTATCCTTTGTGCTGTTTTTCCTCATAAATTGC ATTCCTTTTTATTCAAAATTAGGTCATTCACTTTGACCTCACATTCTCAGCTTTCATGCATATG AAAAAAAGGGCTAATTTCCTCCTTTGCAACTTTACATCCAATGGCTTCTGCATTTTATTCATCT CATTTTATTCCTTTATATAAGGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAG GGAAAACAGATGCAATGAGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAGAGAAGCA AGTCTCCACCTTCACTGATGATCCCAAACTCCCATGTCAAACTGCTTTGCAGAAAATGTACTCG TTGCTTGAAAAGTAAGCATCATTGTTTATGTTAGTTTTATGTATCATAAATATATATTTTTTTT ATCGGCAAAAATAATTATATATATATAATAGAATTGGAGTACCAGAGGTACTTTGTACAAAGAT AGGATTCCATAAACATGGTTCCTCAGTGAAACTGATATAGTTTGATTAGGAACCATATTGTGGC TACATATTTAATATACAGCTGCTAAATACCAATCAAAAACTACCCTCTACTGATACAAAAAGCC TTGTCGAATATGGCTTGACCAGTGATTAAAGTGCAGTGTGAAATCTTTCTCCAAGTTTCTAAGC CAAGTCCAAATTAAAAACATTGCATCCTCAACCAGCTTGTTGCCATTGAAAATTGCATTAGAGA ATATAATTCTGTTGTGCATCTGCCAAATGGACCTTACCACAGCCAGCCACCAACATTGCCATCT CTTTACCCTTATACCATCCACCTGAACAGATGAGTGTTGGAGGAAATGACATATGGGAAGAGCA CTTGTAATATTCATCCAAGACATGGTTTCCCACCAAATGGGCAGGATTTTTATGCAATGAATGA ATAAATGGGATGCCTCCTCCTCCACACTACCACAGAAAGGACATGTTAAATCCCTGATCGGCAC TTGTCTCCTCTGCAGATTTATCATAAATATTAGATTAGGAAGTCAACCCTTGGTGGATATTTTC TTGAGAACTCAATCTAGAATGACTTTTATCGAAATAGAATATAAACTATTTTCTGATGTCTACT TAAATGCTGTAGATTCAGACATTTCAAGTCACAAATATAGAATGCAACATACACTTGTTTAGTT TGATGTTTCTTGGTGTATGTGTTCCTTGCTATTGGAAATGGAATATAACCTATTTTCTGATGTC TACTTAAATGGTGTAGATTCAGACATTTCATGTTTTAAATATAGAATGCAGCATATACTTGTTT AGTTTGATGTTTCTTGGTGTATGCGTTCCTTGCTATTCTCTATAGATATAGCATGAACTCATGA AGCTTATTTATCAATTCATCTATTTCCATCTTGCTCTATTTTTACTTCCAGAGTGGAGCAAAGC ATATATGCACTCTTACGGACAAGAGATATGGCTATTTCAAGGTACAAAGAGTTTGGAATACCAG TAACTTGGCTATTAGATACAGGACTTGTGGGCAAGGTATGCTTCTAAACTTAAAGAATCCATTT GGGTTCTAGTTAACACAAAGGACTTGTTCATTGAAGAAGGTGTTTTCTTTTTATACCTGTTGGG CTTGAAAATTTTGTATTTGGTTACAACTTGTTGATACCCCAGCCCCCTATACCGCAATGATTTA TATCATTCCCTTAAAAGGCATAAGGCTTCATTATGAAATCTTGTAACTGTATGTTTTTTCCCTT TGTACTTTACTTTTTCTCTCCCCCTAAACTTTTGCAATTTTATTTAGAACACCTCAAAAAAGAC CTTCTTGGAAAATCCAATTCTATCATGCCTTCAATAGTAGCCTGTTTGCCAATATTACACAATT GTTTACGTATTGTAACAGACATGCATACTCTGAAAGTATAGGGATTCGATGGATAGGTAGGGAG AAAAATAATAGAATTTACTTAACTGATAGGACTTTGAATAGTTTGTTTTGTTTTGTTTTGATGA TATAGAACATTGAATACTTCTAGTGATACTGATATTCCAAGTATAGTTACAAGTGTATTTCATA TAGTACAAGTCAAACGACTCAAACCCACTAACGATTCCCTTCAAGCTAAAATCAGCTAGTTACT CGTCTAATAGTAAGAATATCACAAGTAAACAAAATAGACAAAAAAGTAAACTTAAAAATATAAT AACAAGGGCATGCCTTTGCTGTTATGACCTTGCATTGATGTCTGCTTCTGTTTGAAGCTAACAA ATGGTCACTTAATTAGTAGTTGCTACTGGTAACTCTACCATTGCAGATCAAGCTTTCTTCTGTG CAACTGGCAAACATGTATATGAAACGTGTTGCATCTGAACTTGAAATATTATCTGGACCCAAGA AGGAACCGACCAGAGAGTTTTTGATTCTGCAAGGAGTGCATTTTGCTTTTCGTGTTCATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.395399262

Conservation Information
Conserved circRNAs	NA
PMCS	0.395399262

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							42361093-42363312(+)
						
						Potential amino acid sequence
						
							MREAAFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEF
GIPVTWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQV
KADVETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMR
EAAFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGI
PVTWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQVKA
DVETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMREA
AFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGIPV
TWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQVKADV
ETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMREAAF
EYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGIPVTW
LLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						cytoplasmic male sterility

Functional Information
Coding potential	Y
Potential coding position	42361093-42363312(+)
Potential amino acid sequence	MREAAFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEF GIPVTWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQV KADVETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMR EAAFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGI PVTWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQVKA DVETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMREA AFEYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGIPV TWLLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQVKADV ETQGDFVISLATEVRAASFSKIEDLVAFVNWLDEELSFLVDEQAVLKHFDWPEGKTDAMREAAF EYLDLMKLEKQVSTFTDDPKLPCQTALQKMYSLLEKVEQSIYALLRTRDMAISRYKEFGIPVTW LLDTGLVGKIKLSSVQLANMYMKRVASELEILSGPKKEPTREFLILQGVHFAFRVHQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	cytoplasmic male sterility

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_20G185300_circ_g.1

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