Plant Circular RNA Database

Detail information of GLYMA_17G209600_circ_g.2

			
						 General Information
					
						CircRNA Name
						GLYMA_17G209600_circ_g.2
					
						ID in PlantcircBase
						gma_circ_004556
					
						Alias
						Gm17circRNA375, gma-circRNA2380
					
						Organism
						
							Glycine max						
					
						Position
						
							chr17: 34578204-34579654  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						Tophat, CIRI, find_circ
					
						Parent gene
						
							GLYMA_17G209600						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_17G209600_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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
						KRH05146:4
KRH05140:4
KRH05145:4
KRH05143:4
KRH05142:4
KRH05138:4
KRH05135:4
KRH05134:4
KRH05137:4
KRH05136:4
KRH05139:4
KRH05141:4
KRH05147:3
KRH05144:4

General Information
CircRNA Name	GLYMA_17G209600_circ_g.2
ID in PlantcircBase	gma_circ_004556
Alias	Gm17circRNA375, gma-circRNA2380
Organism	Glycine max
Position	chr17: 34578204-34579654 JBrowse»
Reference genome	v2.0.38
Type	ue-circRNA
Identification method	Tophat, CIRI, find_circ
Parent gene	GLYMA_17G209600
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_17G209600_circ_g.1
Support reads	NA
Tissues	leaf, 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	KRH05146:4 KRH05140:4 KRH05145:4 KRH05143:4 KRH05142:4 KRH05138:4 KRH05135:4 KRH05134:4 KRH05137:4 KRH05136:4 KRH05139:4 KRH05141:4 KRH05147:3 KRH05144:4

			
						 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  
						
							AAGCATAGTAAAAGACTCACCTCATGAAAGTGATACCTTCTTCGATGTTTTACAATTCCTTTGG
TGGCACTATAAAACATGTCCATCAGCATTGTCTTCCctggttttctgatttttgtgctataaaa
cgacggtagtcaatttcactccctatcaatactttctcacaatgttcttccaatttggagacaa
gtttctgg

									
								

					

						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: 572
Transcript exons: 34578204-34578326,34578510-34578620,34579165-34579422,34
579575-34579654
CTGGTTTTCTGATTTTTGTGCTATAAAACGACGGTAGTCAATTTCACTCCCTATCAATACTTTC
TCACAATGTTCTTCCAATTTGGAGACAAGTTTCTGGAATATTTCCTTTTGCATACCAGCCTCAT
TTAAGTCCTTTGGTGCTCGATTACTGGTAGCCACAATTATAGTTCCACTACTCAGCAATCTGCT
TAGAATTCCAGATAAAGCCACAATAGCAAATACATCAACAGTCTGTATCTCATCAAAGCACAAA
ATGCTAGCTCCCTTTTCATTCTCTTCTCCATCCAGGAAAAACATATCTGCAACAGCAGGAAGAA
TGTTTTTCATCTGTACCTCTTGCTTGTATCTTTCTTCAGCAGCCAACCACTCCTTAGCTTTCGT
GTCAAAAGGAAGACTCATAATCCAACCAGCAATGGTCGATTGCAAAGGCTTCTCTTCTATTTGG
TTCTTCCATATCTTGTGCATTTGTTCATTAATTCTAAGCATGGCCTCATGAAAGTGATACCTTC
TTCGATGTTTTACAATTCCTTTGGTGGCACTATAAAACATGTCCATCAGCATTGTCTTCC
						
					

						Genomic sequence
						
							CTGGTTTTCTGATTTTTGTGCTATAAAACGACGGTAGTCAATTTCACTCCCTATCAATACTTTC
TCACAATGTTCTTCCAATTTGGAGACAAGTTTCTGGAATATTTCCTTTTGCATACCAGCCTGCA
CAAAAAGACAAGTATGAGGCCTTGTTTCCAATTGGTCTAGGTTGAGAGGGGATCTGATTCCTCC
AAAACAGAAAATTATCAGGGATGCCAACGGTGTAATTATTGACCCGTAACACAACTGAAGAATG
GGTAAAAATGACAATACATACTATGAAAGATTGACTAGTAAAGAACACACCTCATTTAAGTCCT
TTGGTGCTCGATTACTGGTAGCCACAATTATAGTTCCACTACTCAGCAATCTGCTTAGAATTCC
AGATAAAGCCACAATAGCAAATACATCAACAGTCTGAAATTGAGAGTACCAAAACAGTCATATT
CTATACTACAAGATGTAGAATGAAAAAAAGAAGTGATGTAGTACAGACGTAGCTCACCAATCAT
GCTAGCAACAAGTCAAGGAGGAATGAAAAAACAGGTCCAACTCAATCTAAAAACAGTGGTGCTT
CAATGCCTTCATAGGAGTTTTAACTAGAATACTAGATAGTAGGTACTATGATCTGGAATTGAAG
TATACATATGATTTGGGGAAATATTTGTAGCCGAGTAACCCAAACAGATTACACATGAGAAAAT
AGACCAGGGAAGTAGAAAACTACATAAACTTCCCACTGCCACAAAATCCTTTCAGATGGATCAT
GAAAAACTACTCCATGAAGGAAGGACATTCCCAGTATTCACCAAAAATCCCAAATTTATTATTA
AATAAGAACATAATCCATTATACTCTCCCCAAGTGATCAAATCAATATTAATGGATAGTGGTAT
GGAAACTATTATTTGGGATAAAAATATGGGGAATTCATCATAACAATGTACAAATTTTCCCTTA
CCTGTATCTCATCAAAGCACAAAATGCTAGCTCCCTTTTCATTCTCTTCTCCATCCAGGAAAAA
CATATCTGCAACAGCAGGAAGAATGTTTTTCATCTGTACCTCTTGCTTGTATCTTTCTTCAGCA
GCCAACCACTCCTTAGCTTTCGTGTCAAAAGGAAGACTCATAATCCAACCAGCAATGGTCGATT
GCAAAGGCTTCTCTTCTATTTGGTTCTTCCATATCTTGTGCATTTGTTCATTAATTCTAAGCAT
GGCCTGCATATTAGTGGAGGAATTGCTTTCAGCACAGGTTCATAATAATTATCAATGGCCAGAC
TAAAGTAAGATGGTGCATTCCAGAAAAAAAAACCATAGATGAAATCTACATCAATATGACCAAA
AGCTCAAAAGCATAGTAAAAGACTCACCTCATGAAAGTGATACCTTCTTCGATGTTTTACAATT
CCTTTGGTGGCACTATAAAACATGTCCATCAGCATTGTCTTCC
						
					

			
		

Sequences
Splice junction sequence	AAGCATAGTAAAAGACTCACCTCATGAAAGTGATACCTTCTTCGATGTTTTACAATTCCTTTGG TGGCACTATAAAACATGTCCATCAGCATTGTCTTCCctggttttctgatttttgtgctataaaa cgacggtagtcaatttcactccctatcaatactttctcacaatgttcttccaatttggagacaa gtttctgg
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: 572 Transcript exons: 34578204-34578326,34578510-34578620,34579165-34579422,34 579575-34579654 CTGGTTTTCTGATTTTTGTGCTATAAAACGACGGTAGTCAATTTCACTCCCTATCAATACTTTC TCACAATGTTCTTCCAATTTGGAGACAAGTTTCTGGAATATTTCCTTTTGCATACCAGCCTCAT TTAAGTCCTTTGGTGCTCGATTACTGGTAGCCACAATTATAGTTCCACTACTCAGCAATCTGCT TAGAATTCCAGATAAAGCCACAATAGCAAATACATCAACAGTCTGTATCTCATCAAAGCACAAA ATGCTAGCTCCCTTTTCATTCTCTTCTCCATCCAGGAAAAACATATCTGCAACAGCAGGAAGAA TGTTTTTCATCTGTACCTCTTGCTTGTATCTTTCTTCAGCAGCCAACCACTCCTTAGCTTTCGT GTCAAAAGGAAGACTCATAATCCAACCAGCAATGGTCGATTGCAAAGGCTTCTCTTCTATTTGG TTCTTCCATATCTTGTGCATTTGTTCATTAATTCTAAGCATGGCCTCATGAAAGTGATACCTTC TTCGATGTTTTACAATTCCTTTGGTGGCACTATAAAACATGTCCATCAGCATTGTCTTCC
Genomic sequence	CTGGTTTTCTGATTTTTGTGCTATAAAACGACGGTAGTCAATTTCACTCCCTATCAATACTTTC TCACAATGTTCTTCCAATTTGGAGACAAGTTTCTGGAATATTTCCTTTTGCATACCAGCCTGCA CAAAAAGACAAGTATGAGGCCTTGTTTCCAATTGGTCTAGGTTGAGAGGGGATCTGATTCCTCC AAAACAGAAAATTATCAGGGATGCCAACGGTGTAATTATTGACCCGTAACACAACTGAAGAATG GGTAAAAATGACAATACATACTATGAAAGATTGACTAGTAAAGAACACACCTCATTTAAGTCCT TTGGTGCTCGATTACTGGTAGCCACAATTATAGTTCCACTACTCAGCAATCTGCTTAGAATTCC AGATAAAGCCACAATAGCAAATACATCAACAGTCTGAAATTGAGAGTACCAAAACAGTCATATT CTATACTACAAGATGTAGAATGAAAAAAAGAAGTGATGTAGTACAGACGTAGCTCACCAATCAT GCTAGCAACAAGTCAAGGAGGAATGAAAAAACAGGTCCAACTCAATCTAAAAACAGTGGTGCTT CAATGCCTTCATAGGAGTTTTAACTAGAATACTAGATAGTAGGTACTATGATCTGGAATTGAAG TATACATATGATTTGGGGAAATATTTGTAGCCGAGTAACCCAAACAGATTACACATGAGAAAAT AGACCAGGGAAGTAGAAAACTACATAAACTTCCCACTGCCACAAAATCCTTTCAGATGGATCAT GAAAAACTACTCCATGAAGGAAGGACATTCCCAGTATTCACCAAAAATCCCAAATTTATTATTA AATAAGAACATAATCCATTATACTCTCCCCAAGTGATCAAATCAATATTAATGGATAGTGGTAT GGAAACTATTATTTGGGATAAAAATATGGGGAATTCATCATAACAATGTACAAATTTTCCCTTA CCTGTATCTCATCAAAGCACAAAATGCTAGCTCCCTTTTCATTCTCTTCTCCATCCAGGAAAAA CATATCTGCAACAGCAGGAAGAATGTTTTTCATCTGTACCTCTTGCTTGTATCTTTCTTCAGCA GCCAACCACTCCTTAGCTTTCGTGTCAAAAGGAAGACTCATAATCCAACCAGCAATGGTCGATT GCAAAGGCTTCTCTTCTATTTGGTTCTTCCATATCTTGTGCATTTGTTCATTAATTCTAAGCAT GGCCTGCATATTAGTGGAGGAATTGCTTTCAGCACAGGTTCATAATAATTATCAATGGCCAGAC TAAAGTAAGATGGTGCATTCCAGAAAAAAAAACCATAGATGAAATCTACATCAATATGACCAAA AGCTCAAAAGCATAGTAAAAGACTCACCTCATGAAAGTGATACCTTCTTCGATGTTTTACAATT CCTTTGGTGGCACTATAAAACATGTCCATCAGCATTGTCTTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.306709224

Conservation Information
Conserved circRNAs	NA
PMCS	0.306709224

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34579579-34578237(+)
34579648-34579642(-)
						
						Potential amino acid sequence
						
							MKVIPSSMFYNSFGGTIKHVHQHCLPWFSDFCAIKRR*(+)
MLMDMFYSATKGIVKHRRRYHFHEAMLRINEQMHKIWKNQIEEKPLQSTIAGWIMSLPFDTKAK
EWLAAEERYKQEVQMKNILPAVADMFFLDGEENEKGASILCFDEIQTVDVFAIVALSGILSRLL
SSGTIIVATSNRAPKDLNEAGMQKEIFQKLVSKLEEHCEKVLIGSEIDYRRFIAQKSENQGRQC
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34579579-34578237(+) 34579648-34579642(-)
Potential amino acid sequence	MKVIPSSMFYNSFGGTIKHVHQHCLPWFSDFCAIKRR(+) MLMDMFYSATKGIVKHRRRYHFHEAMLRINEQMHKIWKNQIEEKPLQSTIAGWIMSLPFDTKAK EWLAAEERYKQEVQMKNILPAVADMFFLDGEENEKGASILCFDEIQTVDVFAIVALSGILSRLL SSGTIIVATSNRAPKDLNEAGMQKEIFQKLVSKLEEHCEKVLIGSEIDYRRFIAQKSENQGRQC (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a; Chen et al., 2018

circRNA

Detail information of GLYMA_17G209600_circ_g.2

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