Plant Circular RNA Database

Detail information of GLYMA_12G046200_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_12G046200_circ_g.1
					
						ID in PlantcircBase
						gma_circ_003224
					
						Alias
						Gm12circRNA285
					
						Organism
						
							Glycine max						
					
						Position
						
							chr12: 3355908-3358684  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_12G046200						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							GLYMA_12G046100_circ_ag.1 GLYMA_12G046100_circ_ag.2 GLYMA_12G046100_circ_ag.3 						
					
						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
						KRH24515:7

General Information
CircRNA Name	GLYMA_12G046200_circ_g.1
ID in PlantcircBase	gma_circ_003224
Alias	Gm12circRNA285
Organism	Glycine max
Position	chr12: 3355908-3358684 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_12G046200
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	GLYMA_12G046100_circ_ag.1 GLYMA_12G046100_circ_ag.2 GLYMA_12G046100_circ_ag.3
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	KRH24515:7

			
						 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  
						
							CAATATCAAGCAATGGACCGGCCCAACTTTCAGCAGCAGATGAACCAAAGGAAGAACATCTCCC
TGAACCCAAGTCAAGACCACTTTCACCTTATACCATcaactgttgccaaagtaaatcacttcat
attggttacttcactgggaacaaacaaaattggctttcctgcagctatccttaagtgagtatga
aagctttc

									
								

					

						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
						
							CAACTGTTGCCAAAGTAAATCACTTCATATTGGTTACTTCACTGGGAACAAACAAAATTGGCTT
TCCTGCAGCTATCCTTAAGTGAGTATGAAAGCTTTCTCTTGTACTGTGTCCAACAATTTCCATA
TTTGTAGTTCGTAGTCAAGCAGTAATTATATTCACATATTGAGATCATAAAGCAGTTCAACTGA
TTGCTAAATTTCCCTTCTGAAGTTTGTTTTGGGGAGTCCTAGTTTGGAAAAGGAAGGCAGAAGA
AGCACTGCTGGCCAGTGGACTTCCATACACAGTGAGTCATTCTGAATCTCTGATACTAATTTGA
CCCAAGTGCAGGGTTCTATTTGACTAATTATTTTGGCACTCTTCAGATAGTGAGACCTGGAGGT
ATGGAACGGCCTACTGATGCTTTTAAGGAAACTCATAATATAACCCTATCAACGGAAGATACTT
TATTTGGGGGTCTGGTGTCAAACCTTCAGGTACTTATCTTGAGAAATGTTTTCATGTATATAGC
TATAATTATATAAATTATGATAGACATATGGAAGTTGTTAACTCTCTGATTTTCAAGCTTAAAA
GTACCCAAGTACTGATAATAAGTAAAAGTAAATGAATTTCATTTTTTTACTCCTTGCAAACAAA
ATGAAATACTTTTGTGTATGATGGAATATGTTGACAAGCTAGCTCTCATAGTTTTTTGTATGCA
AGTTGATAGAAAAATAATACTAATAAATGTTATTCTTATCCTACTTTCTTTTTTGGCTCTCTTT
TAGTTTTTGAATATATTTTCTTGGTATGAGCATTGCCAATCTAATTTCATAAAAGTCAACAATG
CATTGACTGGAAATCTCATGAGGATCATGGTAACGAGTGCCCTAAATGAGAGTGCATTAGTAGC
ATCAAATGTTACAATTTCTCATTAAACCTTTTTTACTTTGGATTCCTTAACCATTGGATACCGG
GTAGCATTTTCCTCCTCATAATCTCCACAATGGTGCAGTGTCAGTATCCGACAACATGTAGACT
ACAGTTTTGTTGTTTTTCACTTGCATTCTTATCACATATCTAATCTCTTGTTCTTAAATTTTAT
TTGTACATCCTTCGGTAAGCTTATTCTGAAAATTTTCCAGTTATATTAATAAAAATTGAGCCTC
CCATAGATTTTCTTTTCTTATATCTAGATTCTAGCATGTAATGTACACAGAACTTTGAATTTGA
GTGCTACCTTTGCTATCTGCTGTGTTACCACAGGGTATATCTGGTTAGAAATACGTATATACTG
AGGTTAATATAACCATTTTAATTTAGTCCATGTTTGTTTGATTCTTGTCTGCACGTACAGAACA
GAATATATATTATTATGCGCCATATCATATTGCTTGTATATTTCGAAAGTAATGTAAATATGTT
GGCAGTCACTGTTGCCTCTTATGTATGGGAACATATATGCTGCTGATTTTCAAATTGTTAAGTG
AATGCTAACCAAGTGCAAAAACTAACTTACTCTAATCCATTGCAGATTGCTGAACTCTTGGCAG
TCATGGCCAAAAATCGTGATCTTTCATATTGTAAAATAGTGGAGGCAATTGCAGAGACAACTGC
TCCACTGACTCCCATGGAGGAACTTCTTGCAAAGATACCTTCTCAACGTCCTTACATTTCTTCA
CCCAAGGTACTTGCTTCCTCATACAGTACTGTACATTTTAAGGGACATGATCAAAACTAGTCTT
GAGAAAAATGAATGGTCGAAACCTGAAACATAACAGTTGAATTCCTCCTGCTTACCTGTTCAAC
TTGCCATTGAGGCTACTAATCATTATTAACCATTCTATTCTACCTTGCTATTGCTAACAAGTGA
TATTAGTTTATTCATTGTTTATTGGGATGGTTCAGAAACCAGATATTGCAGCTGTCAGTGTTCC
AGATCCCCCTGCTAATGTTGTGACTGTGGAACCTAAAGTTGCCACTCAACAAGAAACTGCACAA
CCTAAACCAGTGGCAAAACAACCACTTTCTCCTTATATCGTGTAAGCCAAATTCCATATATTGC
CTTGGCAACAGATATTAAAATGTTATGCAGTGAAACTTGTTAGTCTTTCTGATTATGTAATAAC
TAATAAGGATTAGGATACAACCAATTTTTTCATTGTGGACTGAGGAGGCATAAACTAATTTGAT
GTTTATTTTATCAGTTATGATGATTTGAAGCCACCATCATCTCCTTCTCCATCTCAGCCTGGTG
GTGGGAAACCAACAAAGATCAGTGAGACAGTGCCAAAACCAAGTGCTTCAGATACTCCAAGTAG
TGTGCCAGGAGTAGATGGCATCTCTCAGACAACATCGTCATCTAAAGTGGAGAAGCCTCTTTCT
CCTTATGTAGCGTAAGCAGCCCTCTAATTTTGTGCTCGCATATTAATACACATTTTCTTGTTAT
CAGCAGCTTGGTAGTACTTCTATTTGTGGTGTGTCTATGCATTAGCACCTGACCTTATATAGTT
TGGTTTCAACTTATGTCAATTCTATCACAGCCCTCAGTATGATATTCTTGTTATGTTTGTTCCC
TGAGGCCATGTTATGCCTGCAGATATCCTGACTTAAAGCCTCCCACATCACCATCTCCTAATGC
ACCAACTGTATCAGTTTCCACACCTGCTGCAGCTGGGGTGCCGGAGATAGACACAATATCAAGC
AATGGACCGGCCCAACTTTCAGCAGCAGATGAACCAAAGGAAGAACATCTCCCTGAACCCAAGT
CAAGACCACTTTCACCTTATACCAT
						
					

			
		

Sequences
Splice junction sequence	CAATATCAAGCAATGGACCGGCCCAACTTTCAGCAGCAGATGAACCAAAGGAAGAACATCTCCC TGAACCCAAGTCAAGACCACTTTCACCTTATACCATcaactgttgccaaagtaaatcacttcat attggttacttcactgggaacaaacaaaattggctttcctgcagctatccttaagtgagtatga aagctttc
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	CAACTGTTGCCAAAGTAAATCACTTCATATTGGTTACTTCACTGGGAACAAACAAAATTGGCTT TCCTGCAGCTATCCTTAAGTGAGTATGAAAGCTTTCTCTTGTACTGTGTCCAACAATTTCCATA TTTGTAGTTCGTAGTCAAGCAGTAATTATATTCACATATTGAGATCATAAAGCAGTTCAACTGA TTGCTAAATTTCCCTTCTGAAGTTTGTTTTGGGGAGTCCTAGTTTGGAAAAGGAAGGCAGAAGA AGCACTGCTGGCCAGTGGACTTCCATACACAGTGAGTCATTCTGAATCTCTGATACTAATTTGA CCCAAGTGCAGGGTTCTATTTGACTAATTATTTTGGCACTCTTCAGATAGTGAGACCTGGAGGT ATGGAACGGCCTACTGATGCTTTTAAGGAAACTCATAATATAACCCTATCAACGGAAGATACTT TATTTGGGGGTCTGGTGTCAAACCTTCAGGTACTTATCTTGAGAAATGTTTTCATGTATATAGC TATAATTATATAAATTATGATAGACATATGGAAGTTGTTAACTCTCTGATTTTCAAGCTTAAAA GTACCCAAGTACTGATAATAAGTAAAAGTAAATGAATTTCATTTTTTTACTCCTTGCAAACAAA ATGAAATACTTTTGTGTATGATGGAATATGTTGACAAGCTAGCTCTCATAGTTTTTTGTATGCA AGTTGATAGAAAAATAATACTAATAAATGTTATTCTTATCCTACTTTCTTTTTTGGCTCTCTTT TAGTTTTTGAATATATTTTCTTGGTATGAGCATTGCCAATCTAATTTCATAAAAGTCAACAATG CATTGACTGGAAATCTCATGAGGATCATGGTAACGAGTGCCCTAAATGAGAGTGCATTAGTAGC ATCAAATGTTACAATTTCTCATTAAACCTTTTTTACTTTGGATTCCTTAACCATTGGATACCGG GTAGCATTTTCCTCCTCATAATCTCCACAATGGTGCAGTGTCAGTATCCGACAACATGTAGACT ACAGTTTTGTTGTTTTTCACTTGCATTCTTATCACATATCTAATCTCTTGTTCTTAAATTTTAT TTGTACATCCTTCGGTAAGCTTATTCTGAAAATTTTCCAGTTATATTAATAAAAATTGAGCCTC CCATAGATTTTCTTTTCTTATATCTAGATTCTAGCATGTAATGTACACAGAACTTTGAATTTGA GTGCTACCTTTGCTATCTGCTGTGTTACCACAGGGTATATCTGGTTAGAAATACGTATATACTG AGGTTAATATAACCATTTTAATTTAGTCCATGTTTGTTTGATTCTTGTCTGCACGTACAGAACA GAATATATATTATTATGCGCCATATCATATTGCTTGTATATTTCGAAAGTAATGTAAATATGTT GGCAGTCACTGTTGCCTCTTATGTATGGGAACATATATGCTGCTGATTTTCAAATTGTTAAGTG AATGCTAACCAAGTGCAAAAACTAACTTACTCTAATCCATTGCAGATTGCTGAACTCTTGGCAG TCATGGCCAAAAATCGTGATCTTTCATATTGTAAAATAGTGGAGGCAATTGCAGAGACAACTGC TCCACTGACTCCCATGGAGGAACTTCTTGCAAAGATACCTTCTCAACGTCCTTACATTTCTTCA CCCAAGGTACTTGCTTCCTCATACAGTACTGTACATTTTAAGGGACATGATCAAAACTAGTCTT GAGAAAAATGAATGGTCGAAACCTGAAACATAACAGTTGAATTCCTCCTGCTTACCTGTTCAAC TTGCCATTGAGGCTACTAATCATTATTAACCATTCTATTCTACCTTGCTATTGCTAACAAGTGA TATTAGTTTATTCATTGTTTATTGGGATGGTTCAGAAACCAGATATTGCAGCTGTCAGTGTTCC AGATCCCCCTGCTAATGTTGTGACTGTGGAACCTAAAGTTGCCACTCAACAAGAAACTGCACAA CCTAAACCAGTGGCAAAACAACCACTTTCTCCTTATATCGTGTAAGCCAAATTCCATATATTGC CTTGGCAACAGATATTAAAATGTTATGCAGTGAAACTTGTTAGTCTTTCTGATTATGTAATAAC TAATAAGGATTAGGATACAACCAATTTTTTCATTGTGGACTGAGGAGGCATAAACTAATTTGAT GTTTATTTTATCAGTTATGATGATTTGAAGCCACCATCATCTCCTTCTCCATCTCAGCCTGGTG GTGGGAAACCAACAAAGATCAGTGAGACAGTGCCAAAACCAAGTGCTTCAGATACTCCAAGTAG TGTGCCAGGAGTAGATGGCATCTCTCAGACAACATCGTCATCTAAAGTGGAGAAGCCTCTTTCT CCTTATGTAGCGTAAGCAGCCCTCTAATTTTGTGCTCGCATATTAATACACATTTTCTTGTTAT CAGCAGCTTGGTAGTACTTCTATTTGTGGTGTGTCTATGCATTAGCACCTGACCTTATATAGTT TGGTTTCAACTTATGTCAATTCTATCACAGCCCTCAGTATGATATTCTTGTTATGTTTGTTCCC TGAGGCCATGTTATGCCTGCAGATATCCTGACTTAAAGCCTCCCACATCACCATCTCCTAATGC ACCAACTGTATCAGTTTCCACACCTGCTGCAGCTGGGGTGCCGGAGATAGACACAATATCAAGC AATGGACCGGCCCAACTTTCAGCAGCAGATGAACCAAAGGAAGAACATCTCCCTGAACCCAAGT CAAGACCACTTTCACCTTATACCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024529228

Conservation Information
Conserved circRNAs	NA
PMCS	0.024529228

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3358598-3355986(+)
3356293-3355986(+)
						
						Potential amino acid sequence
						
							MDRPNFQQQMNQRKNISLNPSQDHFHLIPSTVAKVNHFILVTSLGTNKIGFPAAILNLFWGVLV
WKRKAEEALLASGLPYTIVRPGGMERPTDAFKETHNITLSTEDTLFGGLVSNLQIAELLAVMAK
NRDLSYCKIVEAIAETTAPLTPMEELLAKIPSQRPYISSPKKPDIAAVSVPDPPANVVTVEPKV
ATQQETAQPKPVAKQPLSPYIVYDDLKPPSSPSPSQPGGGKPTKISETVPKPSASDTPSSVPGV
DGISQTTSSSKVEKPLSPYVAYPDLKPPTSPSPNAPTVSVSTPAAAGVPEIDTISSNGPAQLSA
ADEPKEEHLPEPKSRPLSPYTINCCQSKSLHIGYFTGNKQNWLSCSYP*(+)
MERPTDAFKETHNITLSTEDTLFGGLVSNLQIAELLAVMAKNRDLSYCKIVEAIAETTAPLTPM
EELLAKIPSQRPYISSPKKPDIAAVSVPDPPANVVTVEPKVATQQETAQPKPVAKQPLSPYIVY
DDLKPPSSPSPSQPGGGKPTKISETVPKPSASDTPSSVPGVDGISQTTSSSKVEKPLSPYVAYP
DLKPPTSPSPNAPTVSVSTPAAAGVPEIDTISSNGPAQLSAADEPKEEHLPEPKSRPLSPYTIN
CCQSKSLHIGYFTGNKQNWLSCSYP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3358598-3355986(+) 3356293-3355986(+)
Potential amino acid sequence	MDRPNFQQQMNQRKNISLNPSQDHFHLIPSTVAKVNHFILVTSLGTNKIGFPAAILNLFWGVLV WKRKAEEALLASGLPYTIVRPGGMERPTDAFKETHNITLSTEDTLFGGLVSNLQIAELLAVMAK NRDLSYCKIVEAIAETTAPLTPMEELLAKIPSQRPYISSPKKPDIAAVSVPDPPANVVTVEPKV ATQQETAQPKPVAKQPLSPYIVYDDLKPPSSPSPSQPGGGKPTKISETVPKPSASDTPSSVPGV DGISQTTSSSKVEKPLSPYVAYPDLKPPTSPSPNAPTVSVSTPAAAGVPEIDTISSNGPAQLSA ADEPKEEHLPEPKSRPLSPYTINCCQSKSLHIGYFTGNKQNWLSCSYP(+) MERPTDAFKETHNITLSTEDTLFGGLVSNLQIAELLAVMAKNRDLSYCKIVEAIAETTAPLTPM EELLAKIPSQRPYISSPKKPDIAAVSVPDPPANVVTVEPKVATQQETAQPKPVAKQPLSPYIVY DDLKPPSSPSPSQPGGGKPTKISETVPKPSASDTPSSVPGVDGISQTTSSSKVEKPLSPYVAYP DLKPPTSPSPNAPTVSVSTPAAAGVPEIDTISSNGPAQLSAADEPKEEHLPEPKSRPLSPYTIN CCQSKSLHIGYFTGNKQNWLSCSYP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_12G046200_circ_g.1

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