Plant Circular RNA Database

Detail information of GLYMA_18G148000_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_18G148000_circ_g.1
					
						ID in PlantcircBase
						gma_circ_007539
					
						Alias
						gma-circRNA2469
					
						Organism
						
							Glycine max						
					
						Position
						
							chr18: 25335150-25337976  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_18G148000						
					
						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
						KRG99477:4

General Information
CircRNA Name	GLYMA_18G148000_circ_g.1
ID in PlantcircBase	gma_circ_007539
Alias	gma-circRNA2469
Organism	Glycine max
Position	chr18: 25335150-25337976 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_18G148000
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	KRG99477:4

			
						 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  
						
							ATTATTATCAGGTGGTTATGACAAGGAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTA
AAGTACTGGGGACCAAAAGCAACCACTAACTTTCCTggtgggcgaattcaaagggtgtgatgga
ttcacagagtgagacccaacaacttgcggtgccgaaaatggaagatttttacttcggtgatcac
cagcaaga

									
								

					

						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: 563
Transcript exons: 25335150-25335531,25335995-25336077,25337770-25337778,25
337888-25337976
GGTGGGCGAATTCAAAGGGTGTGATGGATTCACAGAGTGAGACCCAACAACTTGCGGTGCCGAA
AATGGAAGATTTTTACTTCGGTGATCACCAGCAAGATCTGAAGGCGATTGTTCCTGGGTTCAAA
GCGCTCTCTGGGACCAACTCGGTGGATGACTCGGCCCCCAACAAGACGACGACTCGGGTTGCGC
CCGCTGAGTTGACTGGTGCTCACTCAGGCGAGTCTTGCAAAGGATCTGCTTTGTCGTTATGCGA
TGTTGCTGCAAATGGTTCTGATGATAGTAATGATAATAAGGCCATTGTTGCGGTGGGGTTTGAT
ACTCGGAAGAAGGTTGCTCATACCTTTGGCCAGCGAACTTCAATTTACAGAGGGGTCACAAGGC
ACCGATGGACGGGCAGATATGAAGCGCATCTATGGGATAACAGCTGTAGGCGAGAGGGTCAGGC
CAGGAAAGGGCGTCAAGTGTACTTGGGTGGTTATGACAAGGAAGATAAGGCTGCGAGGGCTTAT
GATTTAGCAGCTCTAAAGTACTGGGGACCAAAAGCAACCACTAACTTTCCT
						
					

						Genomic sequence
						
							GGTGGGCGAATTCAAAGGGTGTGATGGATTCACAGAGTGAGACCCAACAACTTGCGGTGCCGAA
AATGGAAGATTTTTACTTCGGTGATCACCAGCAAGATCTGAAGGCGATTGTTCCTGGGTTCAAA
GCGCTCTCTGGGACCAACTCGGTGGATGACTCGGCCCCCAACAAGACGACGACTCGGGTTGCGC
CCGCTGAGTTGACTGGTGCTCACTCAGGCGAGTCTTGCAAAGGATCTGCTTTGTCGTTATGCGA
TGTTGCTGCAAATGGTTCTGATGATAGTAATGATAATAAGGCCATTGTTGCGGTGGGGTTTGAT
ACTCGGAAGAAGGTTGCTCATACCTTTGGCCAGCGAACTTCAATTTACAGAGGGGTCACAAGGT
AGTAGAATCACCATCGTCAAACCATCATTTTGTTTTACTATTGTTATTATTAGGCAAATCTTAA
TAAAGTATTAATAAGTATCCTTAAAGCATTGTTAAGGAACTAAAATGACATGCTTTAATTAAAA
TGCGTAAAATTATATTATTGATTATTTTATATGTTTTTTTAATTTTTATAATAAATATTTTTTC
TTTTTAATTTTTAATTAACGTCCTAAAGACACGGTTAGTCTTGTTATTGATATTATTATTATTA
TTGTGTTTTGTGTTTTTTAATTAATGAACTGATCTTGCTAATGCTGATTGCTGAGGTTGCGGTT
CAGTTGTCATTTATTGAAATTGAGGTCATGGTCGTCATGAATTTTGGCCAGTTTGAATTGAAAA
CACCTTTTGTTACTAATATTTTTATTGTTTTTATTTTTATTTTTGTTTTTTGTTTTTTTGGGTT
TCGTTCACTGCAGGCACCGATGGACGGGCAGATATGAAGCGCATCTATGGGATAACAGCTGTAG
GCGAGAGGGTCAGGCCAGGAAAGGGCGTCAAGGTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTCTCTATATATATATATATATATATATATATATATATTGTTTTCTTTTAGAT
TTGAACTTTGAAAATAAGAAAATGGTAAGAGTAAATGTAAATGAGTAGATACAAAAGGAAATAA
AGAGGGTCACTGTAATGCTGAAAAGAGGGTTGCATGCGTTTGAAAGTTTACTTAATTAAATGCT
TATTATTAAAATTGATTCACGGTTTCTTCAATTTGGCGGGGCATTGATATGGTATGTGTACATG
TACTAATTTAATAATTAATGGAACTAACAGTACTTCTTGCATGTTCAATATTTTCACACTTTGG
ATGATTTAAGAAAGAAATTGGAAACTTTGACGAGTAATAAAGAAAGTGATAATGTTTTTAAAGT
TATTTAATTTTAGAGAAATATATAATAAAGTGAAAAATTAAGATTTTTCTGAAGACATTTATGT
CCTTATTCATAATATTTTCGTTATGCTACTTCTAATTTTCAAATCAAAAGGAAGAAATTAAAAA
TTGGCTTTTGTTTTATAGTAATTTTTTTCTTTCTTTACAAATTTTGTTGTTTCATGCAAAGCAT
GAGATTTATTTTGACCGATGTGCCGGCGTTTTGTCGCCGTGATTGTGAGTGGGGTCTGCAATTT
CCTTCAGTTGATTTGATCCAATGTGCCGCCATTTTTTATGTTTAATAGTATCTCTCATGTTCCG
TACCTGTTTGCGGGTGTGCCTCTTTTTGTTACTGTTCTGTTTTAAATTTTGATAAAATTAAATT
TAGCATAGTTAGTAATTTTGAACTATTAAAATTATATATGTTTAAATTAATTTAAGTTACATTC
TTTTTTTTTTACATTAAAATTGCGAGAAGAATTTTTAACTTTAAATTATAAAGACCATTACCTT
TGTGCATGCATTAATTCTGAGTTTGGCTTTAACTTTTGCTTTTGCTTTCCATTCAGTTGGGTTT
GAGGTTTGACCACTACACCATTTCTAACTCTCTATATTGAAATTTGCACATACATGAATGTTGA
GGGTATGATCCACTGTTGGCTGAAAGGTTTTTCAGTGTGTCTGGCCCTGCAAAATAATAATGTC
CTCTAGCTTTTTATTCTGAAACATACTCACAGGATTTATCAGATCCTTGGATGTTTTTGCTGTC
ACAAATTACATATATAATTCTTATCATAATAATAATTACTTTTGTATGAAAAGGTGAAAAATTG
ACATTTTGTCTACCAATTAGAATAGGCTATTTGACGTTTCATTTCGGCCTGTTTTTAGTTGGAT
ATAGTGGGATCATTAAGACTCTGCCAAGTCAAAATTTTGAAAATTCACAATCAATTGGTTATTA
CAATTTTTTGGTACAATTAAACCTTGATGGGTCCTTCAGTGATGGCATCTCGTGTAATATTATC
ATTTGGCTACAATGGGAATGAAAAGAAGAGGGTAAAACAAATTAAAGCAACTTCTGTGCAGGCG
CCATTGCATGCATTTGATCACTTTTCCTTTAGTCGTATGCATTTTTAGCTTACAAAAGTAGTTT
TTACCAGAATATTTTGACCACCCCATATGGTTAAAATTTGATTTATTTTTTGGCCTTTTTTTTG
CATGGAATGTGGCATTTTGCACTTCCTGACTGTGACCCGTCTTTATGACTGTTCCTACAGTGTA
CTTGGGTAAGAAATTAATGTTGCTACTTAATTTTATTTTTGGTCTTTTCCCAACTTATTTTTCA
ACTTGATACGTTTTGAGACATGAAAATTAAGTTGTGGTGATTATTATCAGGTGGTTATGACAAG
GAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTAAAGTACTGGGGACCAAAAGCAACCA
CTAACTTTCCT
						
					

			
		

Sequences
Splice junction sequence	ATTATTATCAGGTGGTTATGACAAGGAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTA AAGTACTGGGGACCAAAAGCAACCACTAACTTTCCTggtgggcgaattcaaagggtgtgatgga ttcacagagtgagacccaacaacttgcggtgccgaaaatggaagatttttacttcggtgatcac cagcaaga
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: 563 Transcript exons: 25335150-25335531,25335995-25336077,25337770-25337778,25 337888-25337976 GGTGGGCGAATTCAAAGGGTGTGATGGATTCACAGAGTGAGACCCAACAACTTGCGGTGCCGAA AATGGAAGATTTTTACTTCGGTGATCACCAGCAAGATCTGAAGGCGATTGTTCCTGGGTTCAAA GCGCTCTCTGGGACCAACTCGGTGGATGACTCGGCCCCCAACAAGACGACGACTCGGGTTGCGC CCGCTGAGTTGACTGGTGCTCACTCAGGCGAGTCTTGCAAAGGATCTGCTTTGTCGTTATGCGA TGTTGCTGCAAATGGTTCTGATGATAGTAATGATAATAAGGCCATTGTTGCGGTGGGGTTTGAT ACTCGGAAGAAGGTTGCTCATACCTTTGGCCAGCGAACTTCAATTTACAGAGGGGTCACAAGGC ACCGATGGACGGGCAGATATGAAGCGCATCTATGGGATAACAGCTGTAGGCGAGAGGGTCAGGC CAGGAAAGGGCGTCAAGTGTACTTGGGTGGTTATGACAAGGAAGATAAGGCTGCGAGGGCTTAT GATTTAGCAGCTCTAAAGTACTGGGGACCAAAAGCAACCACTAACTTTCCT
Genomic sequence	GGTGGGCGAATTCAAAGGGTGTGATGGATTCACAGAGTGAGACCCAACAACTTGCGGTGCCGAA AATGGAAGATTTTTACTTCGGTGATCACCAGCAAGATCTGAAGGCGATTGTTCCTGGGTTCAAA GCGCTCTCTGGGACCAACTCGGTGGATGACTCGGCCCCCAACAAGACGACGACTCGGGTTGCGC CCGCTGAGTTGACTGGTGCTCACTCAGGCGAGTCTTGCAAAGGATCTGCTTTGTCGTTATGCGA TGTTGCTGCAAATGGTTCTGATGATAGTAATGATAATAAGGCCATTGTTGCGGTGGGGTTTGAT ACTCGGAAGAAGGTTGCTCATACCTTTGGCCAGCGAACTTCAATTTACAGAGGGGTCACAAGGT AGTAGAATCACCATCGTCAAACCATCATTTTGTTTTACTATTGTTATTATTAGGCAAATCTTAA TAAAGTATTAATAAGTATCCTTAAAGCATTGTTAAGGAACTAAAATGACATGCTTTAATTAAAA TGCGTAAAATTATATTATTGATTATTTTATATGTTTTTTTAATTTTTATAATAAATATTTTTTC TTTTTAATTTTTAATTAACGTCCTAAAGACACGGTTAGTCTTGTTATTGATATTATTATTATTA TTGTGTTTTGTGTTTTTTAATTAATGAACTGATCTTGCTAATGCTGATTGCTGAGGTTGCGGTT CAGTTGTCATTTATTGAAATTGAGGTCATGGTCGTCATGAATTTTGGCCAGTTTGAATTGAAAA CACCTTTTGTTACTAATATTTTTATTGTTTTTATTTTTATTTTTGTTTTTTGTTTTTTTGGGTT TCGTTCACTGCAGGCACCGATGGACGGGCAGATATGAAGCGCATCTATGGGATAACAGCTGTAG GCGAGAGGGTCAGGCCAGGAAAGGGCGTCAAGGTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC TCTCTCTCTCTCTCTCTATATATATATATATATATATATATATATATATTGTTTTCTTTTAGAT TTGAACTTTGAAAATAAGAAAATGGTAAGAGTAAATGTAAATGAGTAGATACAAAAGGAAATAA AGAGGGTCACTGTAATGCTGAAAAGAGGGTTGCATGCGTTTGAAAGTTTACTTAATTAAATGCT TATTATTAAAATTGATTCACGGTTTCTTCAATTTGGCGGGGCATTGATATGGTATGTGTACATG TACTAATTTAATAATTAATGGAACTAACAGTACTTCTTGCATGTTCAATATTTTCACACTTTGG ATGATTTAAGAAAGAAATTGGAAACTTTGACGAGTAATAAAGAAAGTGATAATGTTTTTAAAGT TATTTAATTTTAGAGAAATATATAATAAAGTGAAAAATTAAGATTTTTCTGAAGACATTTATGT CCTTATTCATAATATTTTCGTTATGCTACTTCTAATTTTCAAATCAAAAGGAAGAAATTAAAAA TTGGCTTTTGTTTTATAGTAATTTTTTTCTTTCTTTACAAATTTTGTTGTTTCATGCAAAGCAT GAGATTTATTTTGACCGATGTGCCGGCGTTTTGTCGCCGTGATTGTGAGTGGGGTCTGCAATTT CCTTCAGTTGATTTGATCCAATGTGCCGCCATTTTTTATGTTTAATAGTATCTCTCATGTTCCG TACCTGTTTGCGGGTGTGCCTCTTTTTGTTACTGTTCTGTTTTAAATTTTGATAAAATTAAATT TAGCATAGTTAGTAATTTTGAACTATTAAAATTATATATGTTTAAATTAATTTAAGTTACATTC TTTTTTTTTTACATTAAAATTGCGAGAAGAATTTTTAACTTTAAATTATAAAGACCATTACCTT TGTGCATGCATTAATTCTGAGTTTGGCTTTAACTTTTGCTTTTGCTTTCCATTCAGTTGGGTTT GAGGTTTGACCACTACACCATTTCTAACTCTCTATATTGAAATTTGCACATACATGAATGTTGA GGGTATGATCCACTGTTGGCTGAAAGGTTTTTCAGTGTGTCTGGCCCTGCAAAATAATAATGTC CTCTAGCTTTTTATTCTGAAACATACTCACAGGATTTATCAGATCCTTGGATGTTTTTGCTGTC ACAAATTACATATATAATTCTTATCATAATAATAATTACTTTTGTATGAAAAGGTGAAAAATTG ACATTTTGTCTACCAATTAGAATAGGCTATTTGACGTTTCATTTCGGCCTGTTTTTAGTTGGAT ATAGTGGGATCATTAAGACTCTGCCAAGTCAAAATTTTGAAAATTCACAATCAATTGGTTATTA CAATTTTTTGGTACAATTAAACCTTGATGGGTCCTTCAGTGATGGCATCTCGTGTAATATTATC ATTTGGCTACAATGGGAATGAAAAGAAGAGGGTAAAACAAATTAAAGCAACTTCTGTGCAGGCG CCATTGCATGCATTTGATCACTTTTCCTTTAGTCGTATGCATTTTTAGCTTACAAAAGTAGTTT TTACCAGAATATTTTGACCACCCCATATGGTTAAAATTTGATTTATTTTTTGGCCTTTTTTTTG CATGGAATGTGGCATTTTGCACTTCCTGACTGTGACCCGTCTTTATGACTGTTCCTACAGTGTA CTTGGGTAAGAAATTAATGTTGCTACTTAATTTTATTTTTGGTCTTTTCCCAACTTATTTTTCA ACTTGATACGTTTTGAGACATGAAAATTAAGTTGTGGTGATTATTATCAGGTGGTTATGACAAG GAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTAAAGTACTGGGGACCAAAAGCAACCA CTAACTTTCCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.150548196

Conservation Information
Conserved circRNAs	NA
PMCS	0.150548196

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25335174-25335170(+)
						
						Potential amino acid sequence
						
							MDSQSETQQLAVPKMEDFYFGDHQQDLKAIVPGFKALSGTNSVDDSAPNKTTTRVAPAELTGAH
SGESCKGSALSLCDVAANGSDDSNDNKAIVAVGFDTRKKVAHTFGQRTSIYRGVTRHRWTGRYE
AHLWDNSCRREGQARKGRQVYLGGYDKEDKAARAYDLAALKYWGPKATTNFPGGRIQRV*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25335174-25335170(+)
Potential amino acid sequence	MDSQSETQQLAVPKMEDFYFGDHQQDLKAIVPGFKALSGTNSVDDSAPNKTTTRVAPAELTGAH SGESCKGSALSLCDVAANGSDDSNDNKAIVAVGFDTRKKVAHTFGQRTSIYRGVTRHRWTGRYE AHLWDNSCRREGQARKGRQVYLGGYDKEDKAARAYDLAALKYWGPKATTNFPGGRIQRV*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_18G148000_circ_g.1

Address

Any questions?

Supported by