Plant Circular RNA Database

Detail information of orai.009G009300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G009300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000910
					
						Alias
						Chr09:754397|757180
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 754397-757180  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G009300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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  
						
							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
						Gorai.009G009300.2:5
Gorai.009G009300.1:5

General Information
CircRNA Name	orai.009G009300_circ_g.1
ID in PlantcircBase	gra_circ_000910
Alias	Chr09:754397\|757180
Organism	Gossypium raimondii
Position	chrChr09: 754397-757180 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G009300
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	2
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	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	Gorai.009G009300.2:5 Gorai.009G009300.1:5

			
						 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  
						
							TTAGATGATTCAAATGTGGATGCATGGGGTATGCACGGCCTCGAAAATCAAGATTGTGAGGATA
ATAAAAGCCTTCCTCATTTTCCATTTTCCGAGCCACtttagcagtataacaagctgcagaaaat
agcagcctatcatcagttatatgacccttctcctctaatcttcgttttatttgctcacgtgccc
caacaaaa

									
								

					

						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
						
							TTTAGCAGTATAACAAGCTGCAGAAAATAGCAGCCTATCATCAGTTATATGACCCTTCTCCTCT
AATCTTCGTTTTATTTGCTCACGTGCCCCAACAAAAGTTACACCATATACTGAAGTCATTACCG
TTTGCTTTACTAATTTTCGATCCACCTGAAAGTTTCCAACATTTTAATCTGTTAGTTAAAGGGG
GGAAGTCCTAACTCAAAATCAAGTGTAAATAGTTTAGATGTTAACTGTTCAAGGAAATCTAGTA
AATTGAGTAAATAAAACCAAGTCCAACCTGATCAATTAAGAGCTTTGCCAATAAAGCATTGGGA
TTCGTCGCAGGATCCTTGTTACTGTCCCTCTTCATTATATTGTGAACCCTGTTAATCCCCAGAA
GATATAAACAGTGACGAAGAATAAGGACATCCTTTATTTCTCATTTTCTAGTACTAAATTTCAG
AATACACAGAAATAGATTTTTTTTTCCCCAGAAACTAAAGCAGCAGCAAAGAGAAATGAGGCTG
ACATAAAATATATATGGGACTAAACATTAAAGGTTTGAATTTTCCTTTGTTACTTCAATAAAGA
AGAAGTATGTTTACGCCTTCGGTTGTTTTTTCTCCTTTCCTCATTTTTAAGCAACAACTAAATG
CAGCCAACATTATCAACAAGAAAATTTCTGAATGGAGCAAGACAAGTTTATATGCAGCATGCTT
ATATACGCCCTATAACGAGTTTTCTAGATAATAACTAAAAGGATTTAATATACCTCACAGCGAT
TTCAGAATAAACATCAGCTGGTTTCTCTCCAGCAACCAAGTTAACAGCTGCAGCTTCCAACTAG
GGAACAGATAAAAGATGTGAGACCATAGATGCACTTTTAATAACTAATCCAGAAAAACTGGCTA
ACCATAAACTGATAATTAGTGGGTAATAATTTTGTAACAAAGATAAGTTGAACTGGAACACAAC
TTCAGGTTCTAAAATATATTGAGAAAACATGTATCTGTGTGTGTGTTTGTGTGTAACCCAAACA
TGACGATATCAATTGTGGATTATTCAGAACAAGGAAAAAAGCTTATCTACAAACCACAAACATA
CATTGTCTCTTCCCAAGGCTGCATAGTGCTGTAAGCCATTGCAGGAACCATCCTGTAATAATTT
TTTAAGGGAGAGAAGGAAAGGAAAAGAAGCGTGAGGCACATGAAGTAGTTAAGGGGAAAAAATG
AAATAAAAACTGTTACGATCTTAGCATCCACAACAGAAACAAGAAACAATAAAGCTAATTAAAC
AACTAAGAGAAGATAATTTTAAAATGTTCATGTAAGGTATATTGAAGAGGAAAAAGATTCAAAT
GCATGTAAGGGAAACTGATAAACAATACCCTTTAACCAGGGAGAATAGAATCAAAATAATGCAG
GTAATTTCTAGCTAGAGGTGTGCATGGGCCAGGCCAGTTTTGGGCTGGGTTCAATTAAAAATTT
AGGCCCATTTGCTAGGCCTGGGACCGGCCCAAAAAATGGGCCTAAAATGTTTCACAAGCCCGAC
CCGGATAAAAATGTTAAAACTCAAGCCCAACCCGGCCCGCCCATATTAATTTTTATATATTTTT
TATATAATTTTAAAAAATATATAATACATCAAAAATATTAAAAACATCAAAATAAATATTTCCC
AACAAATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAATATAGATGCAACTT
AACAAGCAAATGACTCTATAATAATAACAAAATTAACAATAAAATAAGTTTTATACAATATCCA
AACAATAACAACAAAATAGTAGCAACATAATAGTAAAATGGTAGCAAAATAGGGAGAAAACAAT
AAGAAAATAATATATATATTTTTTAAAAACAGATTTTTTTTTGTCCCTTAGTGAATTCAAGCCG
GGGCCCAGGCCAAAAATGCCTTACCTGAGGCCCAGCCTTTTTTTTAAATGGGCCTTATTTTTTG
TCCAAGCCCATTTTCCAGGCCTATATTTTTGCCCCAACCCTCTCACATTTCGGGCCGGGCAGGG
TGGCCCGACCCATTAACAGGTCTATTTCTAACCAATCATTTATATAAGTTACAATCCTAAGATG
TGGCAGCAGTAAAAGGTCATTACAAGCAACGAACATATCATGTCATTCACAGAACGCAAAACTA
TTGAAATTGGATGATCATGGCAAAAGAGATAAGTATATTATTTAAATCAATTGAATTTCGACTT
TGAAATGTTGATTGTGCAGAAATGTAACTCAACAAGCAACCTAGAGAAATTTACTTATCATATG
TTTCAGCTTAGGCATATGGAAATTGTCCTTGTCTTTGCTTCAAGGACCCTAATGAAAATTTACC
TGATGAATTGGCAGGTAAGAGATCATACTATGTGGTGATGTGCTCTTTAAGGCTTCTGACAGGT
TCATACAAGCAGCTAAGCACTGAAAAGGATCCTCAGCGGTTAACCACCATCGGTTTCCATTAAT
AGGGTTTTCTGCTGAATCAAATATTTCATCTAAATGGTTATCAACAAATGCCAGACGCCCGTCA
TGGGAAAGCTTTTCAACACCTCCTGAGTACAGGTTTGCTAAATGTATTTTCAGCCAATGTAATC
CTGATCTCCCCAATGGTCGTCCTTCAGCAAATTCAAGAACTCCTCGACAGAGATCAGAACTTAG
ATGATTCAAATGTGGATGCATGGGGTATGCACGGCCTCGAAAATCAAGATTGTGAGGATAATAA
AAGCCTTCCTCATTTTCCATTTTCCGAGCCAC
						
					

			
		

Sequences
Splice junction sequence	TTAGATGATTCAAATGTGGATGCATGGGGTATGCACGGCCTCGAAAATCAAGATTGTGAGGATA ATAAAAGCCTTCCTCATTTTCCATTTTCCGAGCCACtttagcagtataacaagctgcagaaaat agcagcctatcatcagttatatgacccttctcctctaatcttcgttttatttgctcacgtgccc caacaaaa
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	TTTAGCAGTATAACAAGCTGCAGAAAATAGCAGCCTATCATCAGTTATATGACCCTTCTCCTCT AATCTTCGTTTTATTTGCTCACGTGCCCCAACAAAAGTTACACCATATACTGAAGTCATTACCG TTTGCTTTACTAATTTTCGATCCACCTGAAAGTTTCCAACATTTTAATCTGTTAGTTAAAGGGG GGAAGTCCTAACTCAAAATCAAGTGTAAATAGTTTAGATGTTAACTGTTCAAGGAAATCTAGTA AATTGAGTAAATAAAACCAAGTCCAACCTGATCAATTAAGAGCTTTGCCAATAAAGCATTGGGA TTCGTCGCAGGATCCTTGTTACTGTCCCTCTTCATTATATTGTGAACCCTGTTAATCCCCAGAA GATATAAACAGTGACGAAGAATAAGGACATCCTTTATTTCTCATTTTCTAGTACTAAATTTCAG AATACACAGAAATAGATTTTTTTTTCCCCAGAAACTAAAGCAGCAGCAAAGAGAAATGAGGCTG ACATAAAATATATATGGGACTAAACATTAAAGGTTTGAATTTTCCTTTGTTACTTCAATAAAGA AGAAGTATGTTTACGCCTTCGGTTGTTTTTTCTCCTTTCCTCATTTTTAAGCAACAACTAAATG CAGCCAACATTATCAACAAGAAAATTTCTGAATGGAGCAAGACAAGTTTATATGCAGCATGCTT ATATACGCCCTATAACGAGTTTTCTAGATAATAACTAAAAGGATTTAATATACCTCACAGCGAT TTCAGAATAAACATCAGCTGGTTTCTCTCCAGCAACCAAGTTAACAGCTGCAGCTTCCAACTAG GGAACAGATAAAAGATGTGAGACCATAGATGCACTTTTAATAACTAATCCAGAAAAACTGGCTA ACCATAAACTGATAATTAGTGGGTAATAATTTTGTAACAAAGATAAGTTGAACTGGAACACAAC TTCAGGTTCTAAAATATATTGAGAAAACATGTATCTGTGTGTGTGTTTGTGTGTAACCCAAACA TGACGATATCAATTGTGGATTATTCAGAACAAGGAAAAAAGCTTATCTACAAACCACAAACATA CATTGTCTCTTCCCAAGGCTGCATAGTGCTGTAAGCCATTGCAGGAACCATCCTGTAATAATTT TTTAAGGGAGAGAAGGAAAGGAAAAGAAGCGTGAGGCACATGAAGTAGTTAAGGGGAAAAAATG AAATAAAAACTGTTACGATCTTAGCATCCACAACAGAAACAAGAAACAATAAAGCTAATTAAAC AACTAAGAGAAGATAATTTTAAAATGTTCATGTAAGGTATATTGAAGAGGAAAAAGATTCAAAT GCATGTAAGGGAAACTGATAAACAATACCCTTTAACCAGGGAGAATAGAATCAAAATAATGCAG GTAATTTCTAGCTAGAGGTGTGCATGGGCCAGGCCAGTTTTGGGCTGGGTTCAATTAAAAATTT AGGCCCATTTGCTAGGCCTGGGACCGGCCCAAAAAATGGGCCTAAAATGTTTCACAAGCCCGAC CCGGATAAAAATGTTAAAACTCAAGCCCAACCCGGCCCGCCCATATTAATTTTTATATATTTTT TATATAATTTTAAAAAATATATAATACATCAAAAATATTAAAAACATCAAAATAAATATTTCCC AACAAATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAATATAGATGCAACTT AACAAGCAAATGACTCTATAATAATAACAAAATTAACAATAAAATAAGTTTTATACAATATCCA AACAATAACAACAAAATAGTAGCAACATAATAGTAAAATGGTAGCAAAATAGGGAGAAAACAAT AAGAAAATAATATATATATTTTTTAAAAACAGATTTTTTTTTGTCCCTTAGTGAATTCAAGCCG GGGCCCAGGCCAAAAATGCCTTACCTGAGGCCCAGCCTTTTTTTTAAATGGGCCTTATTTTTTG TCCAAGCCCATTTTCCAGGCCTATATTTTTGCCCCAACCCTCTCACATTTCGGGCCGGGCAGGG TGGCCCGACCCATTAACAGGTCTATTTCTAACCAATCATTTATATAAGTTACAATCCTAAGATG TGGCAGCAGTAAAAGGTCATTACAAGCAACGAACATATCATGTCATTCACAGAACGCAAAACTA TTGAAATTGGATGATCATGGCAAAAGAGATAAGTATATTATTTAAATCAATTGAATTTCGACTT TGAAATGTTGATTGTGCAGAAATGTAACTCAACAAGCAACCTAGAGAAATTTACTTATCATATG TTTCAGCTTAGGCATATGGAAATTGTCCTTGTCTTTGCTTCAAGGACCCTAATGAAAATTTACC TGATGAATTGGCAGGTAAGAGATCATACTATGTGGTGATGTGCTCTTTAAGGCTTCTGACAGGT TCATACAAGCAGCTAAGCACTGAAAAGGATCCTCAGCGGTTAACCACCATCGGTTTCCATTAAT AGGGTTTTCTGCTGAATCAAATATTTCATCTAAATGGTTATCAACAAATGCCAGACGCCCGTCA TGGGAAAGCTTTTCAACACCTCCTGAGTACAGGTTTGCTAAATGTATTTTCAGCCAATGTAATC CTGATCTCCCCAATGGTCGTCCTTCAGCAAATTCAAGAACTCCTCGACAGAGATCAGAACTTAG ATGATTCAAATGTGGATGCATGGGGTATGCACGGCCTCGAAAATCAAGATTGTGAGGATAATAA AAGCCTTCCTCATTTTCCATTTTCCGAGCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000298* 						
					
						PMCS
						0.159406469

Conservation Information
Conserved circRNAs	gar_circ_000298*
PMCS	0.159406469

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							757169-754399(-)
754438-757092(-)
757085-754423(+)
756940-754398(+)
						
					

						Potential amino acid sequence
						
							MENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHLANLYSG
GVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKSTSPHSMI
SYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSNKDPATN
PNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAACYTAKV
ARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHLANL
YSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKSTSPH
SMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSNKDP
ATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAACYT
AKVARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHL
ANLYSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKST
SPHSMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSN
KDPATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAA
CYTAKVARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLK
IHLANLYSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEAL
KSTSPHSMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKR
DSNKDPATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLF
SAACYTAK(-)
MIGCYFLQLVILLKWLGKWKMRKAFIILTILIFEAVHTPCIHI*(-)
MIQMWMHGVCTASKIKIVRIIKAFLIFHFPSHFSSITSCRK*(+)
MPDARHGKAFQHLLSTGLLNVFSANVILISPMVVLQQIQELLDRDQNLDDSNVDAWGMHGLENQ
DCEDNKSLPHFPFSEPL*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	757169-754399(-) 754438-757092(-) 757085-754423(+) 756940-754398(+)
Potential amino acid sequence	MENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHLANLYSG GVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKSTSPHSMI SYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSNKDPATN PNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAACYTAKV ARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHLANL YSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKSTSPH SMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSNKDP ATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAACYT AKVARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLKIHL ANLYSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEALKST SPHSMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKRDSN KDPATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLFSAA CYTAKVARKMENEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGVLEFAEGRPLGRSGLHWLK IHLANLYSGGVEKLSHDGRLAFVDNHLDEIFDSAENPINGNRWWLTAEDPFQCLAACMNLSEAL KSTSPHSMISYLPIHQDGSCNGLQHYAALGRDNLEAAAVNLVAGEKPADVYSEIAVRVHNIMKR DSNKDPATNPNALLAKLLIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRLLF SAACYTAK(-) MIGCYFLQLVILLKWLGKWKMRKAFIILTILIFEAVHTPCIHI(-) MIQMWMHGVCTASKIKIVRIIKAFLIFHFPSHFSSITSCRK(+) MPDARHGKAFQHLLSTGLLNVFSANVILISPMVVLQQIQELLDRDQNLDDSNVDAWGMHGLENQ DCEDNKSLPHFPFSEPL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G009300_circ_g.1

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