Plant Circular RNA Database

Detail information of GLYMA_19G004200_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_19G004200_circ_g.1
					
						ID in PlantcircBase
						gma_circ_009615
					
						Alias
						gma_circ_0000678
					
						Organism
						
							Glycine max						
					
						Position
						
							chr19: 344145-347086  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							GLYMA_19G004200						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						KRG93223:6

General Information
CircRNA Name	GLYMA_19G004200_circ_g.1
ID in PlantcircBase	gma_circ_009615
Alias	gma_circ_0000678
Organism	Glycine max
Position	chr19: 344145-347086 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	CIRI
Parent gene	GLYMA_19G004200
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf
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	KRG93223:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: ATGCTTTCATAGGTTTTTGGCG
 R: GAACCCAATCATCTTCAAGTCGC
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	Yes 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	F: ATGCTTTCATAGGTTTTTGGCG R: GAACCCAATCATCTTCAAGTCGC 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  
						
							ATCATTTTGTATATACTGTTCTCACCATAAATTTTTAATAATAGGGCTGAAATCATTCGTGATC
ACAAGACTGGTGACAGTTTATGCTATGCTTTCATAGgtttttggcgaggtagctgaaggatttg
agactttaacgagaataaatgaggcttatgtggatgagaagggaagaccctataaaaatataag
gtttatac

									
								

					

						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
						
							GTTTTTGGCGAGGTAGCTGAAGGATTTGAGACTTTAACGAGAATAAATGAGGCTTATGTGGATG
AGAAGGGAAGACCCTATAAAAATATAAGGTTTATACTAATTCTTCTCTACTACAAAATGTGGAT
TAAAAATGATGTTTTCGTATTTGTCTTTTTGAGATAAATAAAATGTATTCTTTCTGAATTACTT
GAGTAGAATCAAGCACACATACATCCTGGAGGATCCTTATGAAGATCCTTCTCAACTATCTGTG
TTCATTCCTGATGCTTCTCCAGAAGGAAAACCTAAAGATGAGGTAATGGTTTATTGCAACACTA
TATTTCATTACTTGAAACTTCAGAAAATTGTCATCAGTTATTTGTTGGCATTGCTATGGTCCTT
TATCTTAAAACTATTTAATATAAAAATGAGTCCAATTGGCAAAAAAAAAAAAATGAAGCTATTT
CAACTTGAGCATATTAGTGAGTCCATTTGGTACTTTAGACACTTAAAAGAAGTAAGTTTAGGTT
TATAGAAATACAACAAGTCTGCTTTCAGAGGTATCTTTATTTTGAATTACTGGGCCTAACTCAA
TCTCAAAAGGTAATTCAAGGGAGGAAGGTTGCCTGAACCTTATAAGGAGTATTTTAGTCTTATC
CCTAAATGATGTGACATCTAAACACTCACCCATCAGGCCTAGAACTGGACATCTGGAGGATGAA
ATGTACAAGATTTGACATTTGTAGGTTGCCCAACAACAAGACTGGATAATGCAATGGTTTGTCA
TGAACATCCCAAAAACTTAAGCTTTTTAGTGTAGATGTATGAATATTTTTATATCTGTAACATG
CCCCCTCACATAAAATCCCTTTGGGCTTGAAGTGTGAGTAATTCATAGGCTTTCCTATTTCCTA
TGCTGAAATTTAATTTTTATTAAAAGAGTGAGGCAGCAAGGATCAAACTCTAGACCACTTGGTC
ACGTAGGCTCTGAAATCATATTAGAAATGGTCCAAGCCTAAATCCCAAAAGCTAACTTATGGCG
GGAGTTTGCCCAAGCCTTAAGATGTATTTTGGCCATATTTCTAGCCAATATGGGACATGATAAC
ATGAATCTTTGTCCCTTGAGATTCTTCATTGAAATACAACTTTATAAAAATTAAAATGCAGATT
TTAGAGGGTATTTGATCAGTAAATTGCTTGGCATGACATTTGTCTTGCTGTGCTGTTTATGGTA
TCAATTATTTATTTCAAGCAAGGTTCATTGTCAATAGATATTTTATAGGATAAGCTTGTATTTT
TTTTTGCGGGATTTGAGTTTCTTTTTCATGGTTCTCAATTCTCAGTGGGTTTTGTTTCCCCCAA
TTATTTGTGTGGATATATTTGTTTAATTTTATTGGGAAAAACCAAGATAGAGTATATAAGTCTG
GTACAACTTTCACTTTACAAGCCAGTTTTGAAGGGTTGAGTTAAGGTCAAACCCAAATTCTAAG
ATAGCATCAAAGTTATCCTAGATCTATTAATGGACCACCTACCATATTATCCACACACCTTTCC
CAAAAATGCTGGGCATGAGGGAGTGTATTAGGAAAAACTCAAGTCCCACGTTCATTATAGATAA
TACCAAGATAAAGTATAGAAGTGGGGGGACAACCCTCACCTTAATAGCCTATTTGTAGGGTTGA
GTTAGGCTCAAACCCAAAAACTTCGTACCCCATTGCCCAGAGACTCTTCGCTATGCGAAGGTAT
GGAGGAGGGATGTTGTACGCAGCCTTACCCTTGCATATGCAAAGAGGCTGTTTCCGGATTCGAA
CCCATGACCAACAAGTCACCAAGGCACAACTTTACCGCTGCACCAGAGGCTCAAACCCAAATTC
TAGGAAATTTTAGTGCTTTATTTTTTCTCTCTCTTAGTCCATTAGAATATCTCATCCGCTATTT
TTTTTGTGGTTTTTCCTAAATAAATTTTATTTTTCTATAAAAGTGGGTGGGGTGAAGACCGAGA
TTTGCTTCCTACTTTTTGCAAATTATAACAATGAATCAAGAATTGATTACCTGATGATTTGATT
CTTGTGATTTTACAAATTAATTTTATTTTCTGGCTGTGACTGTATGGCTTGAGATGGATGATTA
TATTGGATTTTACTTGTCATGCATTAGTATATTTGTTCAGCATTCTTGGTAAAAACTTTCTGGC
TGTAACTGTATGGCTGTAGATGGATGACTAGATTCTTGTGATATTACAAATAAATTCAAGCATT
ATAATGAAAAATTAAATTTTACCGTCTTCAGTAAGCATGTTTGTTCAAACTTCCAAGTCATGAT
TTAATGCAATTTTACTAGGTTGATGATGAAGTGCGACTTGAAGATGATTGGGTTCCCATGGATG
AACAATTAAATCCGGCAGAACTTGAGGAGGTTATTAGATCAAAGGAAGCACATTCTAGGGCAGT
TGTACTTGAGAGTGTAAGTATGATACATAAAAATTTTAGTACTTCATTTATGAATGTGATCTCA
CGTGAACTCCTGTTTTAGATTGGGGACATTCCTGATGCTGAGATTAAGCCTCCAGACAATGTAT
TGTTTGTCTGTAAATTGAACCCAGTTACTGAGGTGAGTAATCCTTTTCTGTGTTTTATGGATCT
GTAAGTATCATGTCCTCCCCCCCCCCCCCGCGATTGTTACTTATGTAACTGTCAGGATGAGGAC
TTGCATACAATATTTTCACACTTTGGAACTGTTAGTAATTTTTTTCTTTAAATTTTAGGATGAG
GATTTGCATACAATATTTTCACGCTTTGGAACTGTATCAATGTGAGTATTATTAAACAGTCAAC
TGTCCTGGACATTTACTAATAGTGATATCATTTTGTATATACTGTTCTCACCATAAATTTTTAA
TAATAGGGCTGAAATCATTCGTGATCACAAGACTGGTGACAGTTTATGCTATGCTTTCATAG
						
					

			
		

Sequences
Splice junction sequence	ATCATTTTGTATATACTGTTCTCACCATAAATTTTTAATAATAGGGCTGAAATCATTCGTGATC ACAAGACTGGTGACAGTTTATGCTATGCTTTCATAGgtttttggcgaggtagctgaaggatttg agactttaacgagaataaatgaggcttatgtggatgagaagggaagaccctataaaaatataag gtttatac
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	GTTTTTGGCGAGGTAGCTGAAGGATTTGAGACTTTAACGAGAATAAATGAGGCTTATGTGGATG AGAAGGGAAGACCCTATAAAAATATAAGGTTTATACTAATTCTTCTCTACTACAAAATGTGGAT TAAAAATGATGTTTTCGTATTTGTCTTTTTGAGATAAATAAAATGTATTCTTTCTGAATTACTT GAGTAGAATCAAGCACACATACATCCTGGAGGATCCTTATGAAGATCCTTCTCAACTATCTGTG TTCATTCCTGATGCTTCTCCAGAAGGAAAACCTAAAGATGAGGTAATGGTTTATTGCAACACTA TATTTCATTACTTGAAACTTCAGAAAATTGTCATCAGTTATTTGTTGGCATTGCTATGGTCCTT TATCTTAAAACTATTTAATATAAAAATGAGTCCAATTGGCAAAAAAAAAAAAATGAAGCTATTT CAACTTGAGCATATTAGTGAGTCCATTTGGTACTTTAGACACTTAAAAGAAGTAAGTTTAGGTT TATAGAAATACAACAAGTCTGCTTTCAGAGGTATCTTTATTTTGAATTACTGGGCCTAACTCAA TCTCAAAAGGTAATTCAAGGGAGGAAGGTTGCCTGAACCTTATAAGGAGTATTTTAGTCTTATC CCTAAATGATGTGACATCTAAACACTCACCCATCAGGCCTAGAACTGGACATCTGGAGGATGAA ATGTACAAGATTTGACATTTGTAGGTTGCCCAACAACAAGACTGGATAATGCAATGGTTTGTCA TGAACATCCCAAAAACTTAAGCTTTTTAGTGTAGATGTATGAATATTTTTATATCTGTAACATG CCCCCTCACATAAAATCCCTTTGGGCTTGAAGTGTGAGTAATTCATAGGCTTTCCTATTTCCTA TGCTGAAATTTAATTTTTATTAAAAGAGTGAGGCAGCAAGGATCAAACTCTAGACCACTTGGTC ACGTAGGCTCTGAAATCATATTAGAAATGGTCCAAGCCTAAATCCCAAAAGCTAACTTATGGCG GGAGTTTGCCCAAGCCTTAAGATGTATTTTGGCCATATTTCTAGCCAATATGGGACATGATAAC ATGAATCTTTGTCCCTTGAGATTCTTCATTGAAATACAACTTTATAAAAATTAAAATGCAGATT TTAGAGGGTATTTGATCAGTAAATTGCTTGGCATGACATTTGTCTTGCTGTGCTGTTTATGGTA TCAATTATTTATTTCAAGCAAGGTTCATTGTCAATAGATATTTTATAGGATAAGCTTGTATTTT TTTTTGCGGGATTTGAGTTTCTTTTTCATGGTTCTCAATTCTCAGTGGGTTTTGTTTCCCCCAA TTATTTGTGTGGATATATTTGTTTAATTTTATTGGGAAAAACCAAGATAGAGTATATAAGTCTG GTACAACTTTCACTTTACAAGCCAGTTTTGAAGGGTTGAGTTAAGGTCAAACCCAAATTCTAAG ATAGCATCAAAGTTATCCTAGATCTATTAATGGACCACCTACCATATTATCCACACACCTTTCC CAAAAATGCTGGGCATGAGGGAGTGTATTAGGAAAAACTCAAGTCCCACGTTCATTATAGATAA TACCAAGATAAAGTATAGAAGTGGGGGGACAACCCTCACCTTAATAGCCTATTTGTAGGGTTGA GTTAGGCTCAAACCCAAAAACTTCGTACCCCATTGCCCAGAGACTCTTCGCTATGCGAAGGTAT GGAGGAGGGATGTTGTACGCAGCCTTACCCTTGCATATGCAAAGAGGCTGTTTCCGGATTCGAA CCCATGACCAACAAGTCACCAAGGCACAACTTTACCGCTGCACCAGAGGCTCAAACCCAAATTC TAGGAAATTTTAGTGCTTTATTTTTTCTCTCTCTTAGTCCATTAGAATATCTCATCCGCTATTT TTTTTGTGGTTTTTCCTAAATAAATTTTATTTTTCTATAAAAGTGGGTGGGGTGAAGACCGAGA TTTGCTTCCTACTTTTTGCAAATTATAACAATGAATCAAGAATTGATTACCTGATGATTTGATT CTTGTGATTTTACAAATTAATTTTATTTTCTGGCTGTGACTGTATGGCTTGAGATGGATGATTA TATTGGATTTTACTTGTCATGCATTAGTATATTTGTTCAGCATTCTTGGTAAAAACTTTCTGGC TGTAACTGTATGGCTGTAGATGGATGACTAGATTCTTGTGATATTACAAATAAATTCAAGCATT ATAATGAAAAATTAAATTTTACCGTCTTCAGTAAGCATGTTTGTTCAAACTTCCAAGTCATGAT TTAATGCAATTTTACTAGGTTGATGATGAAGTGCGACTTGAAGATGATTGGGTTCCCATGGATG AACAATTAAATCCGGCAGAACTTGAGGAGGTTATTAGATCAAAGGAAGCACATTCTAGGGCAGT TGTACTTGAGAGTGTAAGTATGATACATAAAAATTTTAGTACTTCATTTATGAATGTGATCTCA CGTGAACTCCTGTTTTAGATTGGGGACATTCCTGATGCTGAGATTAAGCCTCCAGACAATGTAT TGTTTGTCTGTAAATTGAACCCAGTTACTGAGGTGAGTAATCCTTTTCTGTGTTTTATGGATCT GTAAGTATCATGTCCTCCCCCCCCCCCCCGCGATTGTTACTTATGTAACTGTCAGGATGAGGAC TTGCATACAATATTTTCACACTTTGGAACTGTTAGTAATTTTTTTCTTTAAATTTTAGGATGAG GATTTGCATACAATATTTTCACGCTTTGGAACTGTATCAATGTGAGTATTATTAAACAGTCAAC TGTCCTGGACATTTACTAATAGTGATATCATTTTGTATATACTGTTCTCACCATAAATTTTTAA TAATAGGGCTGAAATCATTCGTGATCACAAGACTGGTGACAGTTTATGCTATGCTTTCATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.015602005

Conservation Information
Conserved circRNAs	NA
PMCS	0.015602005

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							346507-344161(+)
						
						Potential amino acid sequence
						
							MDEQLNPAELEEVIRSKEAHSRAVVLESIGDIPDAEIKPPDNVLFVCKLNPVTEDEDLHTIFSR
FGTVSMAEIIRDHKTGDSLCYAFIGFWRGS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						playing a key role in low-temperature-responsive regulation

Functional Information
Coding potential	Y
Potential coding position	346507-344161(+)
Potential amino acid sequence	MDEQLNPAELEEVIRSKEAHSRAVVLESIGDIPDAEIKPPDNVLFVCKLNPVTEDEDLHTIFSR FGTVSMAEIIRDHKTGDSLCYAFIGFWRGS*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	playing a key role in low-temperature-responsive regulation

			
						 Other Information
					
						References
						Wang et al., 2020

circRNA

Detail information of GLYMA_19G004200_circ_g.1

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