Plant Circular RNA Database

Detail information of orai.006G180300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G180300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000642
					
						Alias
						Chr06:43776415|43778299
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 43776415-43778299  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G180300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						8
					
						Tissues
						ovule
					
						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
						Gorai.006G180300.2:4
Gorai.006G180300.1:4

General Information
CircRNA Name	orai.006G180300_circ_g.1
ID in PlantcircBase	gra_circ_000642
Alias	Chr06:43776415\|43778299
Organism	Gossypium raimondii
Position	chrChr06: 43776415-43778299 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.006G180300
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	8
Tissues	ovule
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	Gorai.006G180300.2:4 Gorai.006G180300.1:4

			
						 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  
						
							GATAGAGCTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTGCACAAGGGAAAGAA
ATTTGGCAAGTTCACGTGAAGAGTCTAATTCCCCAGaaacaaataaaactatacctgaatctaa
cctcgctgagccaacactaataggcaaccactctagcaaggttaacttgtctgaggcagtgaat
gaaaagaa

									
								

					

						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: 1010
Transcript exons: 43776415-43776914,43777030-43777100,43777316-43777572,43
778118-43778299
AAACAAATAAAACTATACCTGAATCTAACCTCGCTGAGCCAACACTAATAGGCAACCACTCTAG
CAAGGTTAACTTGTCTGAGGCAGTGAATGAAAAGAAAACGAATGGAAGTCAAATAGAAGATACC
ATCAAGCTGCCTACTAGTGTTGATAATCCTTCTGGGAACACTGGATCAGTGGGAAGCAATGAAA
CGCATACGAAAACAAGTTCTGGGAGACGCCTTCTAGAAGATGACACTTCAAAAGGTTCCCAGGA
AGGTAGCTCTGATTCAAAAGAGAATGCTAAGGAAGCTACCGTGGAAAATGATCAAGGGTTAGAA
GCAGATGCAGATTCATCTTTTGATTTATTCCGTGATAGTGATGAGTTGGCTGATGAATATAACT
ATGATTATGATGATTATGTTGATGAGTCCATGTGGGGAGATGAGGAATGGGTGGAAGGACAACA
TGAGAAACTGGAGGATTATGTGAATATTGATTCTCACATCTTGTCTACTCCTGTCATAGCAGAC
ATTGATAATGATGGTGTATCAGAAATGATTGTTGCTGTTTCCTACTTTTTTGATCATGAGTACT
ATGACAACCCTGAGCATATGAAGGAACTTGGAGATATTGATATTGGAAAATACGTTGCTGGTGG
TATTGTTGTATTCAATCTTGATACAAAGCAGGTTAAGTGGACAAAAGATTTAGATTTGAGCACA
GATACTGCCGACTTCCATGCACATATATACTCTTCACCAAATGTTGTTGATTTGGATGGTGATG
GAAACTTGGACATCCTTGTGGGAACTTCATTTGGTTTGTTCTATGTATTGGATCACCATGGAAA
TGTCAGAGAAAAGTTTCCTCTTGAAATGGCAGAAATTCAAAGTGCTGTAATTGCAGCTGATATC
AATGATGATGGCAAGATAGAGCTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTG
CACAAGGGAAAGAAATTTGGCAAGTTCACGTGAAGAGTCTAATTCCCCAG
						
					

						Genomic sequence
						
							AAACAAATAAAACTATACCTGAATCTAACCTCGCTGAGCCAACACTAATAGGCAACCACTCTAG
CAAGGTTAACTTGTCTGAGGCAGTGAATGAAAAGAAAACGAATGGAAGTCAAATAGAAGATACC
ATCAAGCTGCCTACTAGTGTTGATAATCCTTCTGGGAACACTGGATCAGTGGGAAGCAATGAAA
CGCATACGAAAACAAGTTCTGGGAGACGCCTTCTAGAAGATGACACTTCAAAAGGTTCCCAGGA
AGGTAGCTCTGATTCAAAAGAGAATGCTAAGGAAGCTACCGTGGAAAATGATCAAGGGTTAGAA
GCAGATGCAGATTCATCTTTTGATTTATTCCGTGATAGTGATGAGTTGGCTGATGAATATAACT
ATGATTATGATGATTATGTTGATGAGTCCATGTGGGGAGATGAGGAATGGGTGGAAGGACAACA
TGAGAAACTGGAGGATTATGTGAATATTGATTCTCACATCTTGTCTACTCCTGTGAGTATATAT
TTCAATTAGATAATGTGTTTCTTTATAGTGAAGGAACAACATTGGTAGACACTAGTGGAATTCT
ACTACAGAAGTCATAATTTTTTTTCTCTATTGTCATCAGGTCATAGCAGACATTGATAATGATG
GTGTATCAGAAATGATTGTTGCTGTTTCCTACTTTTTTGATCATGAGTGAGTTCTCTTCCTTAC
CTTTCAATCTGACTTCGGAGTCTAGGTTACTCCCAAATGCCACTTGAAATTCATTCATGGAAAA
TTTTAGCTTTTTTCTTCCTTTTTCATATTTAACTTTTGCAAATCTGTTTTATGTTCATTTATAT
TTTGTGGAAGGAGGGATGAGGGATGCCCTTTTACAATTGAAGTGACTGAAAAACTGAATTATTT
GTTAGGTACTATGACAACCCTGAGCATATGAAGGAACTTGGAGATATTGATATTGGAAAATACG
TTGCTGGTGGTATTGTTGTATTCAATCTTGATACAAAGCAGGTTAAGTGGACAAAAGATTTAGA
TTTGAGCACAGATACTGCCGACTTCCATGCACATATATACTCTTCACCAAATGTTGTTGATTTG
GATGGTGATGGAAACTTGGACATCCTTGTGGGAACTTCATTTGGTTTGTTCTATGTATTGGATC
ACCATGGTAATCCCTTTAAATTGATGAGCTTTTTCCTGTATTTTTAGTTAGATTTCTTACTGTT
GGTCTTGTATGGGTGACTCATACTTTAGAACATAGCTAATCAATATTTCCCACCTTTGTGCATA
TGCAAATTCAAGTAGTTGCCTAATCTACTCCAGTGTTGAAACTACTTTAGCTTATATTCAATTT
TTTACCAAATCCCCTTTAAGATTCTTCTTTGTCTAGATTAGTTTATTTCATTAAATATGATTTT
GGTTCAATTATATGGGTTTCGCATGTGAATTTTTTGAAAATGTAACACTCTGGAATTTTCTGCT
TGAACCCTGATTAGTATCTACTCACTGCAGGCTTGCACATCATCCCTTGTATCATAGTACTCTG
TTTCATGTTCCTTTTTTTGAAGTTTTCGTCCTCACGGAACTTGGTGTTATTAGAAATAACGTTC
TGCGCAAAGATCTTCCATCATTGTTTTTCTCTTTTGATATGACTTTAATTATAAGCAACTATTT
TCACCAATTAATCTAATTGGATGGTTCATTTTCATTCAGGAAATGTCAGAGAAAAGTTTCCTCT
TGAAATGGCAGAAATTCAAAGTGCTGTAATTGCAGCTGATATCAATGATGATGGCAAGATAGAG
CTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTGCACAAGGGAAAGAAATTTGGC
AAGTTCACGTGAAGAGTCTAATTCCCCAG
						
					

			
		

Sequences
Splice junction sequence	GATAGAGCTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTGCACAAGGGAAAGAA ATTTGGCAAGTTCACGTGAAGAGTCTAATTCCCCAGaaacaaataaaactatacctgaatctaa cctcgctgagccaacactaataggcaaccactctagcaaggttaacttgtctgaggcagtgaat gaaaagaa
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: 1010 Transcript exons: 43776415-43776914,43777030-43777100,43777316-43777572,43 778118-43778299 AAACAAATAAAACTATACCTGAATCTAACCTCGCTGAGCCAACACTAATAGGCAACCACTCTAG CAAGGTTAACTTGTCTGAGGCAGTGAATGAAAAGAAAACGAATGGAAGTCAAATAGAAGATACC ATCAAGCTGCCTACTAGTGTTGATAATCCTTCTGGGAACACTGGATCAGTGGGAAGCAATGAAA CGCATACGAAAACAAGTTCTGGGAGACGCCTTCTAGAAGATGACACTTCAAAAGGTTCCCAGGA AGGTAGCTCTGATTCAAAAGAGAATGCTAAGGAAGCTACCGTGGAAAATGATCAAGGGTTAGAA GCAGATGCAGATTCATCTTTTGATTTATTCCGTGATAGTGATGAGTTGGCTGATGAATATAACT ATGATTATGATGATTATGTTGATGAGTCCATGTGGGGAGATGAGGAATGGGTGGAAGGACAACA TGAGAAACTGGAGGATTATGTGAATATTGATTCTCACATCTTGTCTACTCCTGTCATAGCAGAC ATTGATAATGATGGTGTATCAGAAATGATTGTTGCTGTTTCCTACTTTTTTGATCATGAGTACT ATGACAACCCTGAGCATATGAAGGAACTTGGAGATATTGATATTGGAAAATACGTTGCTGGTGG TATTGTTGTATTCAATCTTGATACAAAGCAGGTTAAGTGGACAAAAGATTTAGATTTGAGCACA GATACTGCCGACTTCCATGCACATATATACTCTTCACCAAATGTTGTTGATTTGGATGGTGATG GAAACTTGGACATCCTTGTGGGAACTTCATTTGGTTTGTTCTATGTATTGGATCACCATGGAAA TGTCAGAGAAAAGTTTCCTCTTGAAATGGCAGAAATTCAAAGTGCTGTAATTGCAGCTGATATC AATGATGATGGCAAGATAGAGCTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTG CACAAGGGAAAGAAATTTGGCAAGTTCACGTGAAGAGTCTAATTCCCCAG
Genomic sequence	AAACAAATAAAACTATACCTGAATCTAACCTCGCTGAGCCAACACTAATAGGCAACCACTCTAG CAAGGTTAACTTGTCTGAGGCAGTGAATGAAAAGAAAACGAATGGAAGTCAAATAGAAGATACC ATCAAGCTGCCTACTAGTGTTGATAATCCTTCTGGGAACACTGGATCAGTGGGAAGCAATGAAA CGCATACGAAAACAAGTTCTGGGAGACGCCTTCTAGAAGATGACACTTCAAAAGGTTCCCAGGA AGGTAGCTCTGATTCAAAAGAGAATGCTAAGGAAGCTACCGTGGAAAATGATCAAGGGTTAGAA GCAGATGCAGATTCATCTTTTGATTTATTCCGTGATAGTGATGAGTTGGCTGATGAATATAACT ATGATTATGATGATTATGTTGATGAGTCCATGTGGGGAGATGAGGAATGGGTGGAAGGACAACA TGAGAAACTGGAGGATTATGTGAATATTGATTCTCACATCTTGTCTACTCCTGTGAGTATATAT TTCAATTAGATAATGTGTTTCTTTATAGTGAAGGAACAACATTGGTAGACACTAGTGGAATTCT ACTACAGAAGTCATAATTTTTTTTCTCTATTGTCATCAGGTCATAGCAGACATTGATAATGATG GTGTATCAGAAATGATTGTTGCTGTTTCCTACTTTTTTGATCATGAGTGAGTTCTCTTCCTTAC CTTTCAATCTGACTTCGGAGTCTAGGTTACTCCCAAATGCCACTTGAAATTCATTCATGGAAAA TTTTAGCTTTTTTCTTCCTTTTTCATATTTAACTTTTGCAAATCTGTTTTATGTTCATTTATAT TTTGTGGAAGGAGGGATGAGGGATGCCCTTTTACAATTGAAGTGACTGAAAAACTGAATTATTT GTTAGGTACTATGACAACCCTGAGCATATGAAGGAACTTGGAGATATTGATATTGGAAAATACG TTGCTGGTGGTATTGTTGTATTCAATCTTGATACAAAGCAGGTTAAGTGGACAAAAGATTTAGA TTTGAGCACAGATACTGCCGACTTCCATGCACATATATACTCTTCACCAAATGTTGTTGATTTG GATGGTGATGGAAACTTGGACATCCTTGTGGGAACTTCATTTGGTTTGTTCTATGTATTGGATC ACCATGGTAATCCCTTTAAATTGATGAGCTTTTTCCTGTATTTTTAGTTAGATTTCTTACTGTT GGTCTTGTATGGGTGACTCATACTTTAGAACATAGCTAATCAATATTTCCCACCTTTGTGCATA TGCAAATTCAAGTAGTTGCCTAATCTACTCCAGTGTTGAAACTACTTTAGCTTATATTCAATTT TTTACCAAATCCCCTTTAAGATTCTTCTTTGTCTAGATTAGTTTATTTCATTAAATATGATTTT GGTTCAATTATATGGGTTTCGCATGTGAATTTTTTGAAAATGTAACACTCTGGAATTTTCTGCT TGAACCCTGATTAGTATCTACTCACTGCAGGCTTGCACATCATCCCTTGTATCATAGTACTCTG TTTCATGTTCCTTTTTTTGAAGTTTTCGTCCTCACGGAACTTGGTGTTATTAGAAATAACGTTC TGCGCAAAGATCTTCCATCATTGTTTTTCTCTTTTGATATGACTTTAATTATAAGCAACTATTT TCACCAATTAATCTAATTGGATGGTTCATTTTCATTCAGGAAATGTCAGAGAAAAGTTTCCTCT TGAAATGGCAGAAATTCAAAGTGCTGTAATTGCAGCTGATATCAATGATGATGGCAAGATAGAG CTAGTGACGACAGATACACATGGGAATGCTGCTGCATGGACTGCACAAGGGAAAGAAATTTGGC AAGTTCACGTGAAGAGTCTAATTCCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000355* gar_circ_000202 						
					
						PMCS
						1.077374019

Conservation Information
Conserved circRNAs	ghi_circ_000355* gar_circ_000202
PMCS	1.077374019

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							43778242-43776459(+)
43776828-43776459(+)
						
						Potential amino acid sequence
						
							MDCTRERNLASSREESNSPETNKTIPESNLAEPTLIGNHSSKVNLSEAVNEKKTNGSQIEDTIK
LPTSVDNPSGNTGSVGSNETHTKTSSGRRLLEDDTSKGSQEGSSDSKENAKEATVENDQGLEAD
ADSSFDLFRDSDELADEYNYDYDDYVDESMWGDEEWVEGQHEKLEDYVNIDSHILSTPVIADID
NDGVSEMIVAVSYFFDHEYYDNPEHMKELGDIDIGKYVAGGIVVFNLDTKQVKWTKDLDLSTDT
ADFHAHIYSSPNVVDLDGDGNLDILVGTSFGLFYVLDHHGNVREKFPLEMAEIQSAVIAADIND
DGKIELVTTDTHGNAAAWTAQGKEIWQVHVKSLIPQKQIKLYLNLTSLSQH*(+)
MWGDEEWVEGQHEKLEDYVNIDSHILSTPVIADIDNDGVSEMIVAVSYFFDHEYYDNPEHMKEL
GDIDIGKYVAGGIVVFNLDTKQVKWTKDLDLSTDTADFHAHIYSSPNVVDLDGDGNLDILVGTS
FGLFYVLDHHGNVREKFPLEMAEIQSAVIAADINDDGKIELVTTDTHGNAAAWTAQGKEIWQVH
VKSLIPQKQIKLYLNLTSLSQH*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	43778242-43776459(+) 43776828-43776459(+)
Potential amino acid sequence	MDCTRERNLASSREESNSPETNKTIPESNLAEPTLIGNHSSKVNLSEAVNEKKTNGSQIEDTIK LPTSVDNPSGNTGSVGSNETHTKTSSGRRLLEDDTSKGSQEGSSDSKENAKEATVENDQGLEAD ADSSFDLFRDSDELADEYNYDYDDYVDESMWGDEEWVEGQHEKLEDYVNIDSHILSTPVIADID NDGVSEMIVAVSYFFDHEYYDNPEHMKELGDIDIGKYVAGGIVVFNLDTKQVKWTKDLDLSTDT ADFHAHIYSSPNVVDLDGDGNLDILVGTSFGLFYVLDHHGNVREKFPLEMAEIQSAVIAADIND DGKIELVTTDTHGNAAAWTAQGKEIWQVHVKSLIPQKQIKLYLNLTSLSQH(+) MWGDEEWVEGQHEKLEDYVNIDSHILSTPVIADIDNDGVSEMIVAVSYFFDHEYYDNPEHMKEL GDIDIGKYVAGGIVVFNLDTKQVKWTKDLDLSTDTADFHAHIYSSPNVVDLDGDGNLDILVGTS FGLFYVLDHHGNVREKFPLEMAEIQSAVIAADINDDGKIELVTTDTHGNAAAWTAQGKEIWQVH VKSLIPQKQIKLYLNLTSLSQH(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G180300_circ_g.1

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