Plant Circular RNA Database

Detail information of GLYMA_06G222100_circ_g.6

			
						 General Information
					
						CircRNA Name
						GLYMA_06G222100_circ_g.6
					
						ID in PlantcircBase
						gma_circ_001525
					
						Alias
						Gm06circRNA626
					
						Organism
						
							Glycine max						
					
						Position
						
							chr6: 28912792-28919377  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_06G222100						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_06G222100_circ_g.2 GLYMA_06G222100_circ_g.3 GLYMA_06G222100_circ_g.4 GLYMA_06G222100_circ_g.5 GLYMA_06G222100_circ_g.7 GLYMA_06G222100_circ_g.8 GLYMA_06G222100_circ_g.9 						
					
						Support reads
						NA
					
						Tissues
						root, stem
					
						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
						KRH54967:8
KRH54968:8

General Information
CircRNA Name	GLYMA_06G222100_circ_g.6
ID in PlantcircBase	gma_circ_001525
Alias	Gm06circRNA626
Organism	Glycine max
Position	chr6: 28912792-28919377 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_06G222100
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_06G222100_circ_g.2 GLYMA_06G222100_circ_g.3 GLYMA_06G222100_circ_g.4 GLYMA_06G222100_circ_g.5 GLYMA_06G222100_circ_g.7 GLYMA_06G222100_circ_g.8 GLYMA_06G222100_circ_g.9
Support reads	NA
Tissues	root, stem
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	KRH54967:8 KRH54968:8

			
						 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  
						
							TCAAGAACGCCACAAGCGTTTGGAAATTCGTATGGTCCTCTCCAGCAAAATTTACAAACGTCCA
CAACACATCATTGCCCGACAAGAGCTCTGGTTCTTTctggtatagaggacgccaataatcagaa
agaagtaaatctttgtcaaggacaaggattataatttccagagaaagctgcactgcattctcta
aaagttgc

						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: 1143
Transcript exons: 28912792-28912989,28913471-28913594,28913827-28913946,28
914043-28914173,28918309-28918452,28918586-28918687,2891
8956-28919162,28919261-28919377
CTGGTATAGAGGACGCCAATAATCAGAAAGAAGTAAATCTTTGTCAAGGACAAGGATTATAATT
TCCAGAGAAAGCTGCACTGCATTCTCTAAAAGTTGCCCATATAATTGACTACTGCGTTCAGCAA
TAACAGAATTCACCCCTGGCAGAAGAATACTCATTATGTTCCGGAAGGCAGTCTTTCCACTCAT
GAAATCTTTCAGCAACTCTAAAACTGGGAGCTGTGTCTGAAGTGGTGATGATTCTTTAGTTGCT
GAAAGTCGTGACTGATCAACTACACCCTCGTAGTCCTCATCCTTGATGTCGTACATGCTTAATA
CCATGTGAAAATGTTTAAGGCATGCACCAACTAACTGCCATTTTTCACAGGGATCCGCATAGGC
TCTCTGAGGAAATGGCCCAAAAACATGATCATAGATGAACCTAAATATTCCAATAAATCTTCGC
CCTCTATCAGACAAATCTCTTTCTTCTGCAATTAGAGCATTTATCAAATTAAGGAAAGATATAG
TTGAAGGATATTGTTCTCTCCTTGCTTCAATCTCGTTCAGTTCAAATTGCATATCATAAACCTG
AGTACCCATAGATTGTGGACTGTTTGGGATATCAAGCCCAACAACCACTGGCAGATCATATTGC
TCAAGATAGGTCCAGATGCTATCCTTCAGCACTGGAGAGACCTTAATAAATGTGGCTATTGCAT
TCCTTAGAGCACCCTTAAGATAAGGGGGTACATTTTCGTAACTAAGAAGTTTGAACAATGGTTC
AATATCAGGAAACCAGGTTTTCCTTTCTGTTGGGTTCCCATTTTCTACAACCTTCTTTAGAATA
TTCAAGTATGCCACAAGGGCTTTGGCATCCCCCTCCTGAATTTCAGGCAGCATTGCTCCCGCAG
TTTGAAGAGACTGTTTGAATTTCTCATCATAAATTGTTAAGCATTCAAATAAAGTGCTCCATCC
AATTGAACGGAATGCTTTACCTTGCAGCAACTCGTAAACCTTTGAAGCACCTTCTTGACTACAA
GCCAAGGTGCTCAGCATATTCAAGAACGCCACAAGCGTTTGGAAATTCGTATGGTCCTCTCCAG
CAAAATTTACAAACGTCCACAACACATCATTGCCCGACAAGAGCTCTGGTTCTTT
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TCAAGAACGCCACAAGCGTTTGGAAATTCGTATGGTCCTCTCCAGCAAAATTTACAAACGTCCA CAACACATCATTGCCCGACAAGAGCTCTGGTTCTTTctggtatagaggacgccaataatcagaa agaagtaaatctttgtcaaggacaaggattataatttccagagaaagctgcactgcattctcta aaagttgc
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: 1143 Transcript exons: 28912792-28912989,28913471-28913594,28913827-28913946,28 914043-28914173,28918309-28918452,28918586-28918687,2891 8956-28919162,28919261-28919377 CTGGTATAGAGGACGCCAATAATCAGAAAGAAGTAAATCTTTGTCAAGGACAAGGATTATAATT TCCAGAGAAAGCTGCACTGCATTCTCTAAAAGTTGCCCATATAATTGACTACTGCGTTCAGCAA TAACAGAATTCACCCCTGGCAGAAGAATACTCATTATGTTCCGGAAGGCAGTCTTTCCACTCAT GAAATCTTTCAGCAACTCTAAAACTGGGAGCTGTGTCTGAAGTGGTGATGATTCTTTAGTTGCT GAAAGTCGTGACTGATCAACTACACCCTCGTAGTCCTCATCCTTGATGTCGTACATGCTTAATA CCATGTGAAAATGTTTAAGGCATGCACCAACTAACTGCCATTTTTCACAGGGATCCGCATAGGC TCTCTGAGGAAATGGCCCAAAAACATGATCATAGATGAACCTAAATATTCCAATAAATCTTCGC CCTCTATCAGACAAATCTCTTTCTTCTGCAATTAGAGCATTTATCAAATTAAGGAAAGATATAG TTGAAGGATATTGTTCTCTCCTTGCTTCAATCTCGTTCAGTTCAAATTGCATATCATAAACCTG AGTACCCATAGATTGTGGACTGTTTGGGATATCAAGCCCAACAACCACTGGCAGATCATATTGC TCAAGATAGGTCCAGATGCTATCCTTCAGCACTGGAGAGACCTTAATAAATGTGGCTATTGCAT TCCTTAGAGCACCCTTAAGATAAGGGGGTACATTTTCGTAACTAAGAAGTTTGAACAATGGTTC AATATCAGGAAACCAGGTTTTCCTTTCTGTTGGGTTCCCATTTTCTACAACCTTCTTTAGAATA TTCAAGTATGCCACAAGGGCTTTGGCATCCCCCTCCTGAATTTCAGGCAGCATTGCTCCCGCAG TTTGAAGAGACTGTTTGAATTTCTCATCATAAATTGTTAAGCATTCAAATAAAGTGCTCCATCC AATTGAACGGAATGCTTTACCTTGCAGCAACTCGTAAACCTTTGAAGCACCTTCTTGACTACAA GCCAAGGTGCTCAGCATATTCAAGAACGCCACAAGCGTTTGGAAATTCGTATGGTCCTCTCCAG CAAAATTTACAAACGTCCACAACACATCATTGCCCGACAAGAGCTCTGGTTCTTT
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.157908254

Conservation Information
Conserved circRNAs	NA
PMCS	0.157908254

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							28919310-28912797(+)
28919109-28912850(+)
28919277-28912794(-)
						
					

						Potential amino acid sequence
						
							MVLSSKIYKRPQHIIARQELWFFLV*(+)
MLYLAATRKPLKHLLDYKPRCSAYSRTPQAFGNSYGPLQQNLQTSTTHHCPTRALVLSGIEDAN
NQKEVNLCQGQGL*(+)
MLSTLACSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKA
LVAYLNILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDS
IWTYLEQYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEER
DLSDRGRRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVV
DQSRLSATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENA
VQLSLEIIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLS
TLACSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVA
YLNILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWT
YLEQYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLS
DRGRRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQS
RLSATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQL
SLEIIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLSTLA
CSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVAYLN
ILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWTYLE
QYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLSDRG
RRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQSRLS
ATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQLSLE
IIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLSTLACSQ
EGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVAYLNILK
KVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWTYLEQYD
LPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLSDRGRRF
IGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQSRLSATK
ESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQLSLEIII
LVLDKDLLLSDYWRPLYQ(-)
						
					

						Sponge-miRNAs
						
							gma-miR10420 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	28919310-28912797(+) 28919109-28912850(+) 28919277-28912794(-)
Potential amino acid sequence	MVLSSKIYKRPQHIIARQELWFFLV(+) MLYLAATRKPLKHLLDYKPRCSAYSRTPQAFGNSYGPLQQNLQTSTTHHCPTRALVLSGIEDAN NQKEVNLCQGQGL(+) MLSTLACSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKA LVAYLNILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDS IWTYLEQYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEER DLSDRGRRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVV DQSRLSATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENA VQLSLEIIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLS TLACSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVA YLNILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWT YLEQYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLS DRGRRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQS RLSATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQL SLEIIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLSTLA CSQEGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVAYLN ILKKVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWTYLE QYDLPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLSDRG RRFIGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQSRLS ATKESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQLSLE IIILVLDKDLLLSDYWRPLYQKEPELLSGNDVLWTFVNFAGEDHTNFQTLVAFLNMLSTLACSQ EGASKVYELLQGKAFRSIGWSTLFECLTIYDEKFKQSLQTAGAMLPEIQEGDAKALVAYLNILK KVVENGNPTERKTWFPDIEPLFKLLSYENVPPYLKGALRNAIATFIKVSPVLKDSIWTYLEQYD LPVVVGLDIPNSPQSMGTQVYDMQFELNEIEARREQYPSTISFLNLINALIAEERDLSDRGRRF IGIFRFIYDHVFGPFPQRAYADPCEKWQLVGACLKHFHMVLSMYDIKDEDYEGVVDQSRLSATK ESSPLQTQLPVLELLKDFMSGKTAFRNIMSILLPGVNSVIAERSSQLYGQLLENAVQLSLEIII LVLDKDLLLSDYWRPLYQ(-)
Sponge-miRNAs	gma-miR10420
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_06G222100_circ_g.6

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