Plant Circular RNA Database

Detail information of GLYMA_20G187400_circ_g.2

			
						 General Information
					
						CircRNA Name
						GLYMA_20G187400_circ_g.2
					
						ID in PlantcircBase
						gma_circ_007800
					
						Alias
						gma-circRNA2795
					
						Organism
						
							Glycine max						
					
						Position
						
							chr20: 42594022-42597739  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_20G187400						
					
						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
						KRG92040:3
KRG92041:3

General Information
CircRNA Name	GLYMA_20G187400_circ_g.2
ID in PlantcircBase	gma_circ_007800
Alias	gma-circRNA2795
Organism	Glycine max
Position	chr20: 42594022-42597739 JBrowse»
Reference genome	v2.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	GLYMA_20G187400
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	KRG92040:3 KRG92041:3

			
						 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  
						
							TCTCAAACTGTTCAGATTGACCTTGCTTTTGGGGCCTCCAAGATCAGGAAAAACTACACTGCTG
CAAGCACTTGCGGGGAAACTGGATAGGGATTTAAGGagtcgctatagagattccaaaagttgaa
gtccgatttgagcatttgtttgtggaaggagatgcatttaatggaaccagagcactgccaacct
tagtgaac

									
								

					

						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: 295
Transcript exons: 42594022-42594142,42596992-42597080,42597655-42597739
AGTCGCTATAGAGATTCCAAAAGTTGAAGTCCGATTTGAGCATTTGTTTGTGGAAGGAGATGCA
TTTAATGGAACCAGAGCACTGCCAACCTTAGTGAACTCCACCATGAATGCGATAGAGAGAATTC
TTGGATCAATTAATCTTCTTCCATCAAAGAGAAGTGTTATCAAGATACTCCAAGATGTTAGTGG
AATTGTCAAGCCTGCAAGATTGACCTTGCTTTTGGGGCCTCCAAGATCAGGAAAAACTACACTG
CTGCAAGCACTTGCGGGGAAACTGGATAGGGATTTAAGG
						
					

						Genomic sequence
						
							AGTCGCTATAGAGATTCCAAAAGTTGAAGTCCGATTTGAGCATTTGTTTGTGGAAGGAGATGCA
TTTAATGGAACCAGAGCACTGCCAACCTTAGTGAACTCCACCATGAATGCGATAGAGGTATTCT
TTTATTCCTATATTCATGTGTGGTTGAATATGTTACCTTCCACCCTTTCTAATCTCTGTTATCC
TTTTAGTTTCAATACAAAGCTTGCCAACCCAGCTTTTAATATTTTTAATCAAATTAAAAATCGT
CCTCGTTGTATAATAAATGCAAACATATACGCTTTCTTGGTTACAAGGCAAAGATATGCTAATG
AGTGGTGTTTTATATACATAAATGTATATATAAATACTGTATATTAAAAAGAAAAGTTAGTTAA
CATTCATTAACTTGCGTATACTATATGTTTCATATTAATTATATAAATTATTATGATAAAACAA
TCTTTTTAACTAAAAATATTTTATTAAAATATTTATAATATATTTACAAATTAATTAAATATTT
AGATGATATTATTAAATGATAATTAATACTAATTTTTATTTTAAAGTATAATAAATAATTATTT
TTAAAGTGAAAATATTTTAAAATAAATTAAAAATCTGAAAGTGATAGGAAATACGAGATTAAAG
TGTAGTAATTAAAACATTAATAATATGTTCGTTATGTATCTCAATTAATGACATTAAAATGAAA
AGTCTTATCGACACATCACCTGATAATATTGTATTTGCTACTTTTAATTCTTTATTGAGCCTCT
TGAAGACGATGTTTAATATTCTCATTAAATTAGTGAAAAATGCTCGATATACTATGTTTTTAGC
ACTTTTTTATGAGCCTAAAAAACACTTTTTTTATGAGAGAATGATTTTACTTTGTTTCTATCTC
TGTTAATAAATATATAAAATAGATTTTATTTACTTAAAAAATACTTTGTTTCTATCTCTTTGAA
AGACATTAAAAATAATCAATTGAATATTTTTTAATTACTTAAAAAATAATGTGTGTTGAACAAT
TTTTGTGTTTTTATATAATAAATATTTTCCAATAAAGAAATTATTTTTAATTTTTATGAACTCG
TAAGATCTCTTAAAAAAATTCATCTACTAACAAATAATGAGTTTCAAATAATGCGAATTCTAAT
CAGTTTGCTAACTAAGAAAACAAAAGTAAAACATTTTATTAAGATTGTCCATTATATAAAATAT
CGATCAATCCAAAATACAGAAGAAAAAGATTATTAATAATATATAATTGAGAGAATTAGGAAAA
TGAAAAATCTGTTTAATAGACGTGTGGAAAATTTGTTATGTTCAAGAGCTTATTATACAGGATC
ACCACCTGCTTTTTCCCGCGTCAAATAAATCGAAACGGTTTTAAATCGTAGATTACATATGATA
TTTTTTTTATTTAAAAAAAAACAACAATACTATTTTACACTCCCCCTTTTATATCTTCTTTTTC
TAGAAAAAAAAAATAGAGAAAGTTCAAAAGACGAGTACGGAAAGGAGAGATATAAAAATTTAGT
ATACCAATGACATTCCTGATTTATTATTTGTTTGAATATGTATATTTTAAAACTAATAAGTATG
TATATCATGCATTGTTGAAGTATGTTGGGTGTGCAGTGTTTTGAATACTTGAACATTACTTGTT
CCTAAGTTTGAGCTAACAGGTCCTCCAGTGGGACCCACTGCAACCCAACAACTGTGTTGTTGTA
GCAGCTGCCTACAATGACACTTAATTGATACTCAATGAAAAAATACGTTGACAAAATTTAGGGA
GGGGGGGAGAAAATAGTTCTTGGGAGAGAGAATGTGAAAATGCAAAAATAGTGATACTAATTAA
CCATTCATTGGTTAAGTTAGAGTTTGTTTGTTTTTGCGTTAACAATCAATTCTCTTATTACACT
TATCATTTAAATATAAAATTTATGGTTACAATTAATTAAGATACACATCTTAATTATATTAAAA
ATAAATCATATTAAATAAATTTTGAACATAGAGAAATGGGTTGACTTGAGTGAAGGTACTTGAT
TGGGCTTAAAGTCTCTCTCTATATATAGTTGCCTGTTAATTTTTATAATAGTTATTCAAAAGTC
CTATTAAGGATAATATTTGATTGTTTAACAGTAAAATAATTGTACTGAAAATGTATGCATATTA
AACTTTAAACTTTAAATTTAAACTATAAAATTTTCTGCACTATTGGATAATTTAAAAATAAGTA
GAATTTAAAAATAAAATGAAATAAAAATAAGATAACATATAAGAGATTAAAAAAATATTAGTAG
GATTACATATTTTAAGGAAAAAATAGAAAATATTTTAATTGTCAATAATGTAACTTCTATTTAT
TATTAAAAAACAAATTTAAAAATAGCTATTTTGAAATTGAAAAATAAATTACTGAAATATATTA
TTTAAAAAATATATCATGTTTATATCTATCAATCTGATATAGTATGTAAAAACTTAAATTGGGA
TTGAGTAATTTAAGTAATAAGATTTGAGAAGACAGAAAAGAAAATGATAGCTAATGCAAAGTCT
TGAAACACTCAATGCAAGAATTTATAATTTATGGAATATGGATAAGGAGAAATGTTAGAATCGC
AATATCTAACACACTTCTTATTATTTGAGATTTATTAAAATTATAAAATTTCGTAAATCTCGCA
TTTTACTGATCTCTCTTGTGATTTGATTTTGAATGAATTTTAAACAACAAGATATAGTGTGTTG
TTATTAATACTTCTCATTTTTACCATATATGCGTTATGCAACAATTAACTATTGAAGTATAATG
AAACAACGATAAGTATTATGAAGCAAAGGATTTGTGAAGCAATCAATCTCAATATTTACAATTC
TTCTTTTGAAGTGCCTTAAACGTAGTTGTTTAAATTTTTTAACAGCATCTGGCTACTGATATTT
TATTCTTCTTGGTTTGTGACTAACAGAGAATTCTTGGATCAATTAATCTTCTTCCATCAAAGAG
AAGTGTTATCAAGATACTCCAAGATGTTAGTGGAATTGTCAAGCCTGCAAGGTATTTCATAAAA
CGTCTGTTTCGGTAAACTTCTTCAAAAATATTTCTAAAAGACAAAAATGAGAGAAAAAAATGAA
ATGAATTTTTCACAAGATAAAATTAACTTATGCATAAGTAAATTTATAGAACTTTTTTTTAACT
TACCTAAAAGATGATTTTTAACGTATGGATAAATTTTAGTTCATTTTTTATTTTTATTTTCTTC
TTCTTTGAAAAGTTTGTCCAAATAGACCCACAAAGTGTTTTTGATTAATTTGGTGTTACACAGT
GCATTTCCTTACTTAAAAAGGAGTATAAATTGGGAATGTACCCGTAAGATTGCTTGGAGGAGGG
ATTAAGTCTCAATTGAACCTTACCTCATAGCAAATATGAAAAACAAAACAAAGGTTATATAAAT
GCCATCAGAGTTTAATATCACAGTTTCAGTTGTTGACCCTGGTTGAACTCTGTACAAAATTACT
TTCTTGTGGGAAATGTATTCTTTTTCAAAAATGCATCAATGTATTATTTAAGGTATGTTGCTAA
CTTTTTTCCCACCCTTTTCCTATCTATTTATCTTTCTCAAACTGTTCAGATTGACCTTGCTTTT
GGGGCCTCCAAGATCAGGAAAAACTACACTGCTGCAAGCACTTGCGGGGAAACTGGATAGGGAT
TTAAGG
						
					

			
		

Sequences
Splice junction sequence	TCTCAAACTGTTCAGATTGACCTTGCTTTTGGGGCCTCCAAGATCAGGAAAAACTACACTGCTG CAAGCACTTGCGGGGAAACTGGATAGGGATTTAAGGagtcgctatagagattccaaaagttgaa gtccgatttgagcatttgtttgtggaaggagatgcatttaatggaaccagagcactgccaacct tagtgaac
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: 295 Transcript exons: 42594022-42594142,42596992-42597080,42597655-42597739 AGTCGCTATAGAGATTCCAAAAGTTGAAGTCCGATTTGAGCATTTGTTTGTGGAAGGAGATGCA TTTAATGGAACCAGAGCACTGCCAACCTTAGTGAACTCCACCATGAATGCGATAGAGAGAATTC TTGGATCAATTAATCTTCTTCCATCAAAGAGAAGTGTTATCAAGATACTCCAAGATGTTAGTGG AATTGTCAAGCCTGCAAGATTGACCTTGCTTTTGGGGCCTCCAAGATCAGGAAAAACTACACTG CTGCAAGCACTTGCGGGGAAACTGGATAGGGATTTAAGG
Genomic sequence	AGTCGCTATAGAGATTCCAAAAGTTGAAGTCCGATTTGAGCATTTGTTTGTGGAAGGAGATGCA TTTAATGGAACCAGAGCACTGCCAACCTTAGTGAACTCCACCATGAATGCGATAGAGGTATTCT TTTATTCCTATATTCATGTGTGGTTGAATATGTTACCTTCCACCCTTTCTAATCTCTGTTATCC TTTTAGTTTCAATACAAAGCTTGCCAACCCAGCTTTTAATATTTTTAATCAAATTAAAAATCGT CCTCGTTGTATAATAAATGCAAACATATACGCTTTCTTGGTTACAAGGCAAAGATATGCTAATG AGTGGTGTTTTATATACATAAATGTATATATAAATACTGTATATTAAAAAGAAAAGTTAGTTAA CATTCATTAACTTGCGTATACTATATGTTTCATATTAATTATATAAATTATTATGATAAAACAA TCTTTTTAACTAAAAATATTTTATTAAAATATTTATAATATATTTACAAATTAATTAAATATTT AGATGATATTATTAAATGATAATTAATACTAATTTTTATTTTAAAGTATAATAAATAATTATTT TTAAAGTGAAAATATTTTAAAATAAATTAAAAATCTGAAAGTGATAGGAAATACGAGATTAAAG TGTAGTAATTAAAACATTAATAATATGTTCGTTATGTATCTCAATTAATGACATTAAAATGAAA AGTCTTATCGACACATCACCTGATAATATTGTATTTGCTACTTTTAATTCTTTATTGAGCCTCT TGAAGACGATGTTTAATATTCTCATTAAATTAGTGAAAAATGCTCGATATACTATGTTTTTAGC ACTTTTTTATGAGCCTAAAAAACACTTTTTTTATGAGAGAATGATTTTACTTTGTTTCTATCTC TGTTAATAAATATATAAAATAGATTTTATTTACTTAAAAAATACTTTGTTTCTATCTCTTTGAA AGACATTAAAAATAATCAATTGAATATTTTTTAATTACTTAAAAAATAATGTGTGTTGAACAAT TTTTGTGTTTTTATATAATAAATATTTTCCAATAAAGAAATTATTTTTAATTTTTATGAACTCG TAAGATCTCTTAAAAAAATTCATCTACTAACAAATAATGAGTTTCAAATAATGCGAATTCTAAT CAGTTTGCTAACTAAGAAAACAAAAGTAAAACATTTTATTAAGATTGTCCATTATATAAAATAT CGATCAATCCAAAATACAGAAGAAAAAGATTATTAATAATATATAATTGAGAGAATTAGGAAAA TGAAAAATCTGTTTAATAGACGTGTGGAAAATTTGTTATGTTCAAGAGCTTATTATACAGGATC ACCACCTGCTTTTTCCCGCGTCAAATAAATCGAAACGGTTTTAAATCGTAGATTACATATGATA TTTTTTTTATTTAAAAAAAAACAACAATACTATTTTACACTCCCCCTTTTATATCTTCTTTTTC TAGAAAAAAAAAATAGAGAAAGTTCAAAAGACGAGTACGGAAAGGAGAGATATAAAAATTTAGT ATACCAATGACATTCCTGATTTATTATTTGTTTGAATATGTATATTTTAAAACTAATAAGTATG TATATCATGCATTGTTGAAGTATGTTGGGTGTGCAGTGTTTTGAATACTTGAACATTACTTGTT CCTAAGTTTGAGCTAACAGGTCCTCCAGTGGGACCCACTGCAACCCAACAACTGTGTTGTTGTA GCAGCTGCCTACAATGACACTTAATTGATACTCAATGAAAAAATACGTTGACAAAATTTAGGGA GGGGGGGAGAAAATAGTTCTTGGGAGAGAGAATGTGAAAATGCAAAAATAGTGATACTAATTAA CCATTCATTGGTTAAGTTAGAGTTTGTTTGTTTTTGCGTTAACAATCAATTCTCTTATTACACT TATCATTTAAATATAAAATTTATGGTTACAATTAATTAAGATACACATCTTAATTATATTAAAA ATAAATCATATTAAATAAATTTTGAACATAGAGAAATGGGTTGACTTGAGTGAAGGTACTTGAT TGGGCTTAAAGTCTCTCTCTATATATAGTTGCCTGTTAATTTTTATAATAGTTATTCAAAAGTC CTATTAAGGATAATATTTGATTGTTTAACAGTAAAATAATTGTACTGAAAATGTATGCATATTA AACTTTAAACTTTAAATTTAAACTATAAAATTTTCTGCACTATTGGATAATTTAAAAATAAGTA GAATTTAAAAATAAAATGAAATAAAAATAAGATAACATATAAGAGATTAAAAAAATATTAGTAG GATTACATATTTTAAGGAAAAAATAGAAAATATTTTAATTGTCAATAATGTAACTTCTATTTAT TATTAAAAAACAAATTTAAAAATAGCTATTTTGAAATTGAAAAATAAATTACTGAAATATATTA TTTAAAAAATATATCATGTTTATATCTATCAATCTGATATAGTATGTAAAAACTTAAATTGGGA TTGAGTAATTTAAGTAATAAGATTTGAGAAGACAGAAAAGAAAATGATAGCTAATGCAAAGTCT TGAAACACTCAATGCAAGAATTTATAATTTATGGAATATGGATAAGGAGAAATGTTAGAATCGC AATATCTAACACACTTCTTATTATTTGAGATTTATTAAAATTATAAAATTTCGTAAATCTCGCA TTTTACTGATCTCTCTTGTGATTTGATTTTGAATGAATTTTAAACAACAAGATATAGTGTGTTG TTATTAATACTTCTCATTTTTACCATATATGCGTTATGCAACAATTAACTATTGAAGTATAATG AAACAACGATAAGTATTATGAAGCAAAGGATTTGTGAAGCAATCAATCTCAATATTTACAATTC TTCTTTTGAAGTGCCTTAAACGTAGTTGTTTAAATTTTTTAACAGCATCTGGCTACTGATATTT TATTCTTCTTGGTTTGTGACTAACAGAGAATTCTTGGATCAATTAATCTTCTTCCATCAAAGAG AAGTGTTATCAAGATACTCCAAGATGTTAGTGGAATTGTCAAGCCTGCAAGGTATTTCATAAAA CGTCTGTTTCGGTAAACTTCTTCAAAAATATTTCTAAAAGACAAAAATGAGAGAAAAAAATGAA ATGAATTTTTCACAAGATAAAATTAACTTATGCATAAGTAAATTTATAGAACTTTTTTTTAACT TACCTAAAAGATGATTTTTAACGTATGGATAAATTTTAGTTCATTTTTTATTTTTATTTTCTTC TTCTTTGAAAAGTTTGTCCAAATAGACCCACAAAGTGTTTTTGATTAATTTGGTGTTACACAGT GCATTTCCTTACTTAAAAAGGAGTATAAATTGGGAATGTACCCGTAAGATTGCTTGGAGGAGGG ATTAAGTCTCAATTGAACCTTACCTCATAGCAAATATGAAAAACAAAACAAAGGTTATATAAAT GCCATCAGAGTTTAATATCACAGTTTCAGTTGTTGACCCTGGTTGAACTCTGTACAAAATTACT TTCTTGTGGGAAATGTATTCTTTTTCAAAAATGCATCAATGTATTATTTAAGGTATGTTGCTAA CTTTTTTCCCACCCTTTTCCTATCTATTTATCTTTCTCAAACTGTTCAGATTGACCTTGCTTTT GGGGCCTCCAAGATCAGGAAAAACTACACTGCTGCAAGCACTTGCGGGGAAACTGGATAGGGAT TTAAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.193062209

Conservation Information
Conserved circRNAs	NA
PMCS	0.193062209

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							42594129-42594045(+)
42594066-42597695(-)
42594131-42597736(-)
						
						Potential amino acid sequence
						
							MNAIERILGSINLLPSKRSVIKILQDVSGIVKPARLTLLLGPPRSGKTTLLQALAGKLDRDLRS
RYRDSKS*(+)
MLKSDFNFWNLYSDSLNPYPVSPQVLAAV*(-)
MVEFTKVGSALVPLNASPSTNKCSNRTSTFGISIATP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	42594129-42594045(+) 42594066-42597695(-) 42594131-42597736(-)
Potential amino acid sequence	MNAIERILGSINLLPSKRSVIKILQDVSGIVKPARLTLLLGPPRSGKTTLLQALAGKLDRDLRS RYRDSKS(+) MLKSDFNFWNLYSDSLNPYPVSPQVLAAV(-) MVEFTKVGSALVPLNASPSTNKCSNRTSTFGISIATP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_20G187400_circ_g.2

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