Plant Circular RNA Database

Detail information of GLYMA_17G186900_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_17G186900_circ_g.1
					
						ID in PlantcircBase
						gma_circ_007458
					
						Alias
						gma-circRNA2354
					
						Organism
						
							Glycine max						
					
						Position
						
							chr17: 23827350-23829483  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_17G186900						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_17G186900_circ_g.2 						
					
						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
						KRH04786:4

General Information
CircRNA Name	GLYMA_17G186900_circ_g.1
ID in PlantcircBase	gma_circ_007458
Alias	gma-circRNA2354
Organism	Glycine max
Position	chr17: 23827350-23829483 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_17G186900
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_17G186900_circ_g.2
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	KRH04786:4

			
						 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  
						
							ATTGGCACTTCTATACCTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAAT
TGCCATCATACCAATATACTTGGAATATCGATCATCcttttgaaatctttccggaattatggtc
agttctcctttttcaactgcttgaagagctttctcagcaagaggctccatagtcacaaaccact
gcttacta

									
								

					

						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: 468
Transcript exons: 23827350-23827466,23827552-23827669,23827750-23827898,23
829400-23829483
CTTTTGAAATCTTTCCGGAATTATGGTCAGTTCTCCTTTTTCAACTGCTTGAAGAGCTTTCTCA
GCAAGAGGCTCCATAGTCACAAACCACTGCTTACTAACAAGTGGTTCTATCACTTCTCCACCAC
GCTGAGATCTGGGAACTCGTAAAGTGTGTGGTTCTTTTTTCACAGCTAATCTTGTCTCCTCAAG
CTCTGCCCATAGTTTTTTTCGAGCCTCAAAACGATCAAGACCACTGTACAACCCAGCAACATCA
TTTAGTGTTCCATCCTTATTCATCACATTAAGTATCGGAAGACCAAGCTTTCGAGCAAGTAGAT
AGTCATTATGATCATGTCCTGGACTAATTTTCAATACTCCTGTTCCAAATTCTCTATCCACATG
CTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAATTGCCATCATACCAATA
TACTTGGAATATCGATCATC
						
					

						Genomic sequence
						
							CTTTTGAAATCTTTCCGGAATTATGGTCAGTTCTCCTTTTTCAACTGCTTGAAGAGCTTTCTCA
GCAAGAGGCTCCATAGTCACAAACCACTGCTTACTAACAAGTGGTTCTATCACCTGATTAAAAA
ATATGAAGAAAAGTTCCAAGTGAGAAACAAATCAGCAAAAAAATAATGCAAGTTATCAACTAAG
AAAATCTTACTTCTCCACCACGCTGAGATCTGGGAACTCGTAAAGTGTGTGGTTCTTTTTTCAC
AGCTAATCTTGTCTCCTCAAGCTCTGCCCATAGTTTTTTTCGAGCCTCAAAACGATCAAGACCA
CTATGACAGATGTGGCTCGCATATATTAGTCACAACAACATATGGTAAACAACAGCTTAATAAG
ATAGTTCTACAAATACCTGTACAACCCAGCAACATCATTTAGTGTTCCATCCTTATTCATCACA
TTAAGTATCGGAAGACCAAGCTTTCGAGCAAGTAGATAGTCATTATGATCATGTCCTGGACTAA
TTTTCAATACTCCTGTTCCAAATTCTCTATCCACATGCTGTGACACATAACATAAATCAATATA
GACGAATAATGACAAAAATTTCACATTAGAATTGTCCATGAAACAGTGGTTGCAAAATCATTAG
TGGCAAAAGTAGCAACATTTAAAAAATGTATTATAAATTGTAACAAGGAAATTTTATTGCCACA
AGCAGAAAAGTTAGATTTAGAAAGTAGCTGCTGAAAATCATATTCAAATATTCTGTATTTACTG
CATAGATGATTTATAGGCAAGTCCTAACTGATTTAGAGGAACAAAATCTCCTCTAATTATGTGT
ATTATTATAATAAGCCAATATAATTCAAAATCCATGGTGTCATTCGAGCACACGGATTCAGCAG
CTCTATGTCTCTCATTTCCCTCTTTCAACAGTAGCTATTAGAACATACAGGGTGTTATCAGGTT
GGGATTGTACTAGTTGTATTGTATTACACATCAACTTGACTTAGTTCATTAATTTAGATATGCC
AAAGCAAAAAGTGTGTTTTTCTAAAGTATTTTACATAGTATTTACAATAGAGAGAAGAAATAAC
TGCAGGACTAATTACATCCTAATAATCAGCTGATCGGAAACAAATATAGTTGTTGATTGTAATT
CGATATTTAGTTTCCTTATATTAGCCTTTGATAAGATAATTGATTTGATCGAAAATTGCATGAT
CTTGATAAGATTAGATATGGGTACAAATGCTGTAAATCATTCACTGAAAATATAGATTCAACTA
TAGTTAGTGTAAAAAACATATTTTAGAAATGCCTAAATCTAACTACTATTACGGGAAAACATAC
TTTCCTCCTTTCCTTTCTTCTCTCTTAGTATTCTTTTACAAGAAGGAAAACTGATGTATGATAA
GGATATATGAAATTCAAACAGCTAATTACAAAAGAGATCCAGATTGGGAAAAAGCAAGAGAAAA
GGCCCTCACCAATTGTAATCAGCAATCATACCACAAAGAAACAAAACCTTTGCATGGAAGATAA
GAAAATCAGAAGAAACCATATGCATTGGAAACGTACTAGATGATAGCTTACTTGTCAATCAACT
TTAAGTCTATTAAGAGACCTACTATGCATCCATCGATGAGCAACTCACATTTTAATTTCCTAAT
TAGTAGATTGTACTAAAAGGATACCTAGAGTTGAGTTTTCACTTTTCTGCCTCTATCCTGATTC
ACAAACACTATATGTACATATACTATTATTAAAAAAAACATGGATTTAGAGAAAAGGTGAAGGG
GAAAGAGTCAAGAATATACATAAAGTAACATCTTAAAAGACTCATTTACTGATCACCAAAGCAA
TACGTATAAAATGACAGCAACAAATGCATTTATTATTCTCTTCTAATTGTCTAGTAAACATTAA
ACAATCTTTACATAAATTGAATTTCTAATAACAAATCAAAGCAAACAGCATAATCAGTAATCAA
GCACGACAATAATAATAATAATATTAAAAAGAACTACATTAGTTGAACAAATTGGCACTTCTAT
ACCTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAATTGCCATCATACCAA
TATACTTGGAATATCGATCATC
						
					

			
		

Sequences
Splice junction sequence	ATTGGCACTTCTATACCTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAAT TGCCATCATACCAATATACTTGGAATATCGATCATCcttttgaaatctttccggaattatggtc agttctcctttttcaactgcttgaagagctttctcagcaagaggctccatagtcacaaaccact gcttacta
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: 468 Transcript exons: 23827350-23827466,23827552-23827669,23827750-23827898,23 829400-23829483 CTTTTGAAATCTTTCCGGAATTATGGTCAGTTCTCCTTTTTCAACTGCTTGAAGAGCTTTCTCA GCAAGAGGCTCCATAGTCACAAACCACTGCTTACTAACAAGTGGTTCTATCACTTCTCCACCAC GCTGAGATCTGGGAACTCGTAAAGTGTGTGGTTCTTTTTTCACAGCTAATCTTGTCTCCTCAAG CTCTGCCCATAGTTTTTTTCGAGCCTCAAAACGATCAAGACCACTGTACAACCCAGCAACATCA TTTAGTGTTCCATCCTTATTCATCACATTAAGTATCGGAAGACCAAGCTTTCGAGCAAGTAGAT AGTCATTATGATCATGTCCTGGACTAATTTTCAATACTCCTGTTCCAAATTCTCTATCCACATG CTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAATTGCCATCATACCAATA TACTTGGAATATCGATCATC
Genomic sequence	CTTTTGAAATCTTTCCGGAATTATGGTCAGTTCTCCTTTTTCAACTGCTTGAAGAGCTTTCTCA GCAAGAGGCTCCATAGTCACAAACCACTGCTTACTAACAAGTGGTTCTATCACCTGATTAAAAA ATATGAAGAAAAGTTCCAAGTGAGAAACAAATCAGCAAAAAAATAATGCAAGTTATCAACTAAG AAAATCTTACTTCTCCACCACGCTGAGATCTGGGAACTCGTAAAGTGTGTGGTTCTTTTTTCAC AGCTAATCTTGTCTCCTCAAGCTCTGCCCATAGTTTTTTTCGAGCCTCAAAACGATCAAGACCA CTATGACAGATGTGGCTCGCATATATTAGTCACAACAACATATGGTAAACAACAGCTTAATAAG ATAGTTCTACAAATACCTGTACAACCCAGCAACATCATTTAGTGTTCCATCCTTATTCATCACA TTAAGTATCGGAAGACCAAGCTTTCGAGCAAGTAGATAGTCATTATGATCATGTCCTGGACTAA TTTTCAATACTCCTGTTCCAAATTCTCTATCCACATGCTGTGACACATAACATAAATCAATATA GACGAATAATGACAAAAATTTCACATTAGAATTGTCCATGAAACAGTGGTTGCAAAATCATTAG TGGCAAAAGTAGCAACATTTAAAAAATGTATTATAAATTGTAACAAGGAAATTTTATTGCCACA AGCAGAAAAGTTAGATTTAGAAAGTAGCTGCTGAAAATCATATTCAAATATTCTGTATTTACTG CATAGATGATTTATAGGCAAGTCCTAACTGATTTAGAGGAACAAAATCTCCTCTAATTATGTGT ATTATTATAATAAGCCAATATAATTCAAAATCCATGGTGTCATTCGAGCACACGGATTCAGCAG CTCTATGTCTCTCATTTCCCTCTTTCAACAGTAGCTATTAGAACATACAGGGTGTTATCAGGTT GGGATTGTACTAGTTGTATTGTATTACACATCAACTTGACTTAGTTCATTAATTTAGATATGCC AAAGCAAAAAGTGTGTTTTTCTAAAGTATTTTACATAGTATTTACAATAGAGAGAAGAAATAAC TGCAGGACTAATTACATCCTAATAATCAGCTGATCGGAAACAAATATAGTTGTTGATTGTAATT CGATATTTAGTTTCCTTATATTAGCCTTTGATAAGATAATTGATTTGATCGAAAATTGCATGAT CTTGATAAGATTAGATATGGGTACAAATGCTGTAAATCATTCACTGAAAATATAGATTCAACTA TAGTTAGTGTAAAAAACATATTTTAGAAATGCCTAAATCTAACTACTATTACGGGAAAACATAC TTTCCTCCTTTCCTTTCTTCTCTCTTAGTATTCTTTTACAAGAAGGAAAACTGATGTATGATAA GGATATATGAAATTCAAACAGCTAATTACAAAAGAGATCCAGATTGGGAAAAAGCAAGAGAAAA GGCCCTCACCAATTGTAATCAGCAATCATACCACAAAGAAACAAAACCTTTGCATGGAAGATAA GAAAATCAGAAGAAACCATATGCATTGGAAACGTACTAGATGATAGCTTACTTGTCAATCAACT TTAAGTCTATTAAGAGACCTACTATGCATCCATCGATGAGCAACTCACATTTTAATTTCCTAAT TAGTAGATTGTACTAAAAGGATACCTAGAGTTGAGTTTTCACTTTTCTGCCTCTATCCTGATTC ACAAACACTATATGTACATATACTATTATTAAAAAAAACATGGATTTAGAGAAAAGGTGAAGGG GAAAGAGTCAAGAATATACATAAAGTAACATCTTAAAAGACTCATTTACTGATCACCAAAGCAA TACGTATAAAATGACAGCAACAAATGCATTTATTATTCTCTTCTAATTGTCTAGTAAACATTAA ACAATCTTTACATAAATTGAATTTCTAATAACAAATCAAAGCAAACAGCATAATCAGTAATCAA GCACGACAATAATAATAATAATATTAAAAAGAACTACATTAGTTGAACAAATTGGCACTTCTAT ACCTTGTCAGCAATGATAGGAACATGACGGCCAAATGTCTGAGGTACAATTGCCATCATACCAA TATACTTGGAATATCGATCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.173252718

Conservation Information
Conserved circRNAs	NA
PMCS	0.173252718

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23827843-23827581(+)
23829433-23827426(+)
23829458-23827352(-)
						
						Potential amino acid sequence
						
							MIMSWTNFQYSCSKFSIHMLVSNDRNMTAKCLRYNCHHTNILGISIILLKSFRNYGQFSFFNCL
KSFLSKRLHSHKPLLTNKWFYHFSTTLRSGNS*(+)
MSEVQLPSYQYTWNIDHPFEIFPELWSVLLFQLLEELSQQEAP*(+)
MMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLARKLGLPILNVMNKDGTLNDV
AGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGEVIEPLVSKQWFVTMEPLAEK
ALQAVEKGELTIIPERFQKDDRYSKYIGMMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGH
DHNDYLLARKLGLPILNVMNKDGTLNDVAGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRV
PRSQRGGEVIEPLVSKQWFVTMEPLAEKALQAVEKGELTIIPERFQKDDRYSKYIGMMAIVPQT
FGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLARKLGLPILNVMNKDGTLNDVAGLYSGLD
RFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGEVIEPLVSKQWFVTMEPLAEKALQAVEKG
ELTIIPERFQKDDRYSKYIGMMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLA
RKLGLPILNVMNKDGTLNDVAGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGE
VIEPLVSKQWFVTMEPLAEKALQAVEKGELTIIPERFQK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23827843-23827581(+) 23829433-23827426(+) 23829458-23827352(-)
Potential amino acid sequence	MIMSWTNFQYSCSKFSIHMLVSNDRNMTAKCLRYNCHHTNILGISIILLKSFRNYGQFSFFNCL KSFLSKRLHSHKPLLTNKWFYHFSTTLRSGNS(+) MSEVQLPSYQYTWNIDHPFEIFPELWSVLLFQLLEELSQQEAP(+) MMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLARKLGLPILNVMNKDGTLNDV AGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGEVIEPLVSKQWFVTMEPLAEK ALQAVEKGELTIIPERFQKDDRYSKYIGMMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGH DHNDYLLARKLGLPILNVMNKDGTLNDVAGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRV PRSQRGGEVIEPLVSKQWFVTMEPLAEKALQAVEKGELTIIPERFQKDDRYSKYIGMMAIVPQT FGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLARKLGLPILNVMNKDGTLNDVAGLYSGLD RFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGEVIEPLVSKQWFVTMEPLAEKALQAVEKG ELTIIPERFQKDDRYSKYIGMMAIVPQTFGRHVPIIADKHVDREFGTGVLKISPGHDHNDYLLA RKLGLPILNVMNKDGTLNDVAGLYSGLDRFEARKKLWAELEETRLAVKKEPHTLRVPRSQRGGE VIEPLVSKQWFVTMEPLAEKALQAVEKGELTIIPERFQK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_17G186900_circ_g.1

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