Plant Circular RNA Database

Detail information of GLYMA_08G282400_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_08G282400_circ_g.1
					
						ID in PlantcircBase
						gma_circ_008601
					
						Alias
						circRNA2221
					
						Organism
						
							Glycine max						
					
						Position
						
							chr8: 38723092-38724220  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI, CIRCexplorer
					
						Parent gene
						
							GLYMA_08G282400						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						pod
					
						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
						KRH45592:1
KRH45602:1
KRH45603:1
KRH45600:1
KRH45593:1
KRH45594:1
KRH45595:1
KRH45597:1
KRH45599:1
KRH45601:1
KRH45598:1
KRH45596:1

General Information
CircRNA Name	GLYMA_08G282400_circ_g.1
ID in PlantcircBase	gma_circ_008601
Alias	circRNA2221
Organism	Glycine max
Position	chr8: 38723092-38724220 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	CIRI, CIRCexplorer
Parent gene	GLYMA_08G282400
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	pod
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	KRH45592:1 KRH45602:1 KRH45603:1 KRH45600:1 KRH45593:1 KRH45594:1 KRH45595:1 KRH45597:1 KRH45599:1 KRH45601:1 KRH45598:1 KRH45596:1

			
						 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  
						
							TCTTTGATTGGAACAAAAACTTTTGCAGATGCCTTAGGAACTGTAGCTGAGGGAGGAGATGCTG
ATGCCTTATGGTTTGAGGTGGCAACCTTGTGACCCActttttgagccatctgatccttcaccac
ttgaatcaccagcatgattaatacaatccttcttggttctacctctactgcttactgaagatga
acgccttc

						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
						
							CTTTTTGAGCCATCTGATCCTTCACCACTTGAATCACCAGCATGATTAATACAATCCTTCTTGG
TTCTACCTCTACTGCTTACTGAAGATGAACGCCTTCTTCTATGCCTGTCATTATTACTTGCATC
TTTTTGCCTTGATTTATGTTCCCCCTTATCCTTTGCATGCTCCCTTTTCCGGCTAGTATCGTCA
GTGGCACTACCTCTATGGGATTTTTCTGCTTCCTTTTTATCATCCTTGACATCAACATGAGAGG
ATCTTTTCCTTGAGTCTGATTCCTTTGCCTTCTCCCCGTGCCTTAAACTGTGCTGTTTCACTCT
TTCTTTTGCTTCACTGCCATAATCTGTTTTGTCCCTTTTCTGATTCCTTTCATCCTTTCTTCTT
TGATTCTCATTACCTTTTTCATCTATCTTAGTCTTACTACTGTGTACCTCCTTTACAAAGTCTT
TCTCAGAAGTACTCCTGTCAGGTCGATCATTTTTTTCTGATTTTTTTCTGCTTTCCCTACCTGA
ATGATCATCCATTGCTTTTTCCACACTAATGTTCTTTCCAGGCAGTTCAGATCGTGGTATCCCT
GAAGTATCTTTAGAACTAAAACCATTAAATCTATCATGGTTTCTTTCAATGAAATTAAGCCCAT
TATCCCTCAGATCTTCAGACACCACCTTGGAAGAATGTGAATGATTGGATTCCTTGGTCACCTT
GTCATCATGCAACTGATCAGTAGCAGCACCATTGCTACTTCTGGATGGTAAAGAGATAGTTTTG
ACCTGATTATTCACCAAATTAGTTTCACTTATAGCATGCTCATCAAGTTGTGAAATGCCATTAA
CAGATAGATCATGTGTATCTGACAAAGGTTTCTTAATCCCTGACTTATAGGCAGCATCTTTTGC
AGGAGTTGGCACACTGGAACTCTCAATTTCATTGTCTCCATCATCAGCATCAGAACCATAATTT
CCAAGACCTAAAACATCTCCAGGAGAGCTGGAATTAGATTTTTCACTGGCATCAACATTTTCTA
CCTTCTCTTTGATTGGAACAAAAACTTTTGCAGATGCCTTAGGAACTGTAGCTGAGGGAGGAGA
TGCTGATGCCTTATGGTTTGAGGTGGCAACCTTGTGACCCA

Sequences
Splice junction sequence	TCTTTGATTGGAACAAAAACTTTTGCAGATGCCTTAGGAACTGTAGCTGAGGGAGGAGATGCTG ATGCCTTATGGTTTGAGGTGGCAACCTTGTGACCCActttttgagccatctgatccttcaccac ttgaatcaccagcatgattaatacaatccttcttggttctacctctactgcttactgaagatga acgccttc
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	CTTTTTGAGCCATCTGATCCTTCACCACTTGAATCACCAGCATGATTAATACAATCCTTCTTGG TTCTACCTCTACTGCTTACTGAAGATGAACGCCTTCTTCTATGCCTGTCATTATTACTTGCATC TTTTTGCCTTGATTTATGTTCCCCCTTATCCTTTGCATGCTCCCTTTTCCGGCTAGTATCGTCA GTGGCACTACCTCTATGGGATTTTTCTGCTTCCTTTTTATCATCCTTGACATCAACATGAGAGG ATCTTTTCCTTGAGTCTGATTCCTTTGCCTTCTCCCCGTGCCTTAAACTGTGCTGTTTCACTCT TTCTTTTGCTTCACTGCCATAATCTGTTTTGTCCCTTTTCTGATTCCTTTCATCCTTTCTTCTT TGATTCTCATTACCTTTTTCATCTATCTTAGTCTTACTACTGTGTACCTCCTTTACAAAGTCTT TCTCAGAAGTACTCCTGTCAGGTCGATCATTTTTTTCTGATTTTTTTCTGCTTTCCCTACCTGA ATGATCATCCATTGCTTTTTCCACACTAATGTTCTTTCCAGGCAGTTCAGATCGTGGTATCCCT GAAGTATCTTTAGAACTAAAACCATTAAATCTATCATGGTTTCTTTCAATGAAATTAAGCCCAT TATCCCTCAGATCTTCAGACACCACCTTGGAAGAATGTGAATGATTGGATTCCTTGGTCACCTT GTCATCATGCAACTGATCAGTAGCAGCACCATTGCTACTTCTGGATGGTAAAGAGATAGTTTTG ACCTGATTATTCACCAAATTAGTTTCACTTATAGCATGCTCATCAAGTTGTGAAATGCCATTAA CAGATAGATCATGTGTATCTGACAAAGGTTTCTTAATCCCTGACTTATAGGCAGCATCTTTTGC AGGAGTTGGCACACTGGAACTCTCAATTTCATTGTCTCCATCATCAGCATCAGAACCATAATTT CCAAGACCTAAAACATCTCCAGGAGAGCTGGAATTAGATTTTTCACTGGCATCAACATTTTCTA CCTTCTCTTTGATTGGAACAAAAACTTTTGCAGATGCCTTAGGAACTGTAGCTGAGGGAGGAGA TGCTGATGCCTTATGGTTTGAGGTGGCAACCTTGTGACCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.101289142

Conservation Information
Conserved circRNAs	NA
PMCS	0.101289142

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							38724180-38723133(+)
38723136-38724192(-)
38723617-38724192(-)
						
						Potential amino acid sequence
						
							MLMPYGLRWQPCDPLFEPSDPSPLESPA*(+)
MLVIQVVKDQMAQKVGHKVATSNHKASASPPSATVPKASAKVFVPIKEKVENVDASEKSNSSSP
GDVLGLGNYGSDADDGDNEIESSSVPTPAKDAAYKSGIKKPLSDTHDLSVNGISQLDEHAISET
NLVNNQVKTISLPSRSSNGAATDQLHDDKVTKESNHSHSSKVVSEDLRDNGLNFIERNHDRFNG
FSSKDTSGIPRSELPGKNISVEKAMDDHSGRESRKKSEKNDRPDRSTSEKDFVKEVHSSKTKID
EKGNENQRRKDERNQKRDKTDYGSEAKERVKQHSLRHGEKAKESDSRKRSSHVDVKDDKKEAEK
SHRGSATDDTSRKREHAKDKGEHKSRQKDASNNDRHRRRRSSSVSSRGRTKKDCINHAGDSSGE
GSDGSKSGSQGCHLKP*(-)
MDDHSGRESRKKSEKNDRPDRSTSEKDFVKEVHSSKTKIDEKGNENQRRKDERNQKRDKTDYGS
EAKERVKQHSLRHGEKAKESDSRKRSSHVDVKDDKKEAEKSHRGSATDDTSRKREHAKDKGEHK
SRQKDASNNDRHRRRRSSSVSSRGRTKKDCINHAGDSSGEGSDGSKSGSQGCHLKP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	38724180-38723133(+) 38723136-38724192(-) 38723617-38724192(-)
Potential amino acid sequence	MLMPYGLRWQPCDPLFEPSDPSPLESPA(+) MLVIQVVKDQMAQKVGHKVATSNHKASASPPSATVPKASAKVFVPIKEKVENVDASEKSNSSSP GDVLGLGNYGSDADDGDNEIESSSVPTPAKDAAYKSGIKKPLSDTHDLSVNGISQLDEHAISET NLVNNQVKTISLPSRSSNGAATDQLHDDKVTKESNHSHSSKVVSEDLRDNGLNFIERNHDRFNG FSSKDTSGIPRSELPGKNISVEKAMDDHSGRESRKKSEKNDRPDRSTSEKDFVKEVHSSKTKID EKGNENQRRKDERNQKRDKTDYGSEAKERVKQHSLRHGEKAKESDSRKRSSHVDVKDDKKEAEK SHRGSATDDTSRKREHAKDKGEHKSRQKDASNNDRHRRRRSSSVSSRGRTKKDCINHAGDSSGE GSDGSKSGSQGCHLKP(-) MDDHSGRESRKKSEKNDRPDRSTSEKDFVKEVHSSKTKIDEKGNENQRRKDERNQKRDKTDYGS EAKERVKQHSLRHGEKAKESDSRKRSSHVDVKDDKKEAEKSHRGSATDDTSRKREHAKDKGEHK SRQKDASNNDRHRRRRSSSVSSRGRTKKDCINHAGDSSGEGSDGSKSGSQGCHLKP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021a

circRNA

Detail information of GLYMA_08G282400_circ_g.1

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