Plant Circular RNA Database

Detail information of orai.009G185700_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G185700_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000950
					
						Alias
						Chr09:14281684|14283934
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 14281684-14283934  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G185700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.009G185700_circ_g.2 orai.009G185700_circ_g.3 						
					
						Support reads
						4
					
						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.009G185700.2:8
Gorai.009G185700.3:7
Gorai.009G185700.1:8
Gorai.009G185700.4:8

General Information
CircRNA Name	orai.009G185700_circ_g.1
ID in PlantcircBase	gra_circ_000950
Alias	Chr09:14281684\|14283934
Organism	Gossypium raimondii
Position	chrChr09: 14281684-14283934 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G185700
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.009G185700_circ_g.2 orai.009G185700_circ_g.3
Support reads	4
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.009G185700.2:8 Gorai.009G185700.3:7 Gorai.009G185700.1:8 Gorai.009G185700.4:8

			
						 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  
						
							TGGTACTGGATTGTCACAGGATGCACGTAAAGTTGCAGAAGCTAGCATCAAATCAGCTGGAAAT
TCATCATGTACATGGAAGTTGCATGGTGATATTCTGggtgagctggagggagaagaaagaaggc
gactggaggagttgctcgaaagcaatcccgatgactcttcccttcattttcaacttgtaagctg
taaataag

									
								

					

						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
						
							GGTGAGCTGGAGGGAGAAGAAAGAAGGCGACTGGAGGAGTTGCTCGAAAGCAATCCCGATGACT
CTTCCCTTCATTTTCAACTTGTAAGCTGTAAATAAGAAGAAGAATAATAGCAATTATTGGTTCC
TTTCTGTTTCCTTGTTTGTGCGGGTGTTTGTTCTGAGCTAATATCGGTACTAACAGAAGAAATG
CACATGTGATTTTGCACTGCAGGGAGTATGCTTGTGGGAGACTCAGACGGAGAAAGAGAAAGCG
GCGGAGCATTGGGTGATTTCCGTTAAACAAAACCCTAAGAACGCAGCTGCCTTTACCTACTTGG
GCCATTACTACGCCACCGTTTCGGTCGATATCCCCAGAGCCATCAAGTGTTACCAGCGAGCTTT
ATCCCTTAATCCCGATGATTCCGATTCTGGGGTATCTATATTCCTCCTCCTCCTCCTCCCCTTC
CATATTTTTCTCTTTCGTTTTCTTTCTTCTTGGATTGACCTTAAATGAAATAAAACACGCCTAC
AGGAAGCTTTGTGTGATTTGTTGGATAGTCAAGGCAAGGAGACCTTGGAGGTTGCAATTTGCAA
AGATGCTTCTCACAACTCTCCCAGGGCTTTCTGGGCTTTCCGCCGATTGGGTTTTCTCCAGGTT
TTCTTTTTTTCTTTTATCACTCGAAAGAATTGATTTTTTTTATAGTTTTTTTTTATTGGTGTGC
ATCTGCATTCATCAAATTGGAGCAGGTGCATCAAAAGAAATGGTCTGAAGCTGTACAAAGTCTT
CAACAAGCTATTCGGGGCTATCCGACTTCTCCTGATTTGTGGGAAGTAAGTTTTTCATTTAATT
CTACCATCTACCTGTTCTGTTTTCAAAATGCTGTTTAATTTTGTTCACCCTTTTCTAATAATAA
CTAATTGTCTTCTAGGCTCTTGGTCTTGCCTACCACCGGCTTGGCATGTTTACTGCTGCTATTA
AGGTATTTCACTTTCCTTTCACCTTTTAAACTCATTTTTACCTTTACTTTCCCCTTTTCTATTT
GGAGCAATATACTCTCCTAAACTTATTCAGTATGTGATTCGCATATCAAATGTGGAATTTGGGC
AAGAAAGCAATAAACTTGAATGCCCTCATCAGATAATGCTACATAATGCTACTATCTCTCGTGC
TTAACTTGGAAATACTTGAAAACAAGCAGTTAACTGCATGCTGTTTTCTCGTGGACAAATGAAC
ATGTAGAAAGCAAGACAGTCCATTCATTTTCGATATTTTCTTATTTGTCTAAATCATATCTATG
CTCACCATAACCAACGTTCATCTTCAGCTGTCTAAAGAATTCTTTCATAAATTTATCTGCTGGG
TCCTATATAACCATTGAGCAATTAATTTATTGTGGCATTTTTAACAGTCCTATTCACGTGCAAT
TGAATTGGAAGATACAAGAGTCTTTGCGCTAATTGAATGTGGAAACATCTTTTTGATGCTTGGT
TCCTTTAGAAAGGTAAAACCTTTTTGTTATGTTTTCCCTTCTAACTCACTGAATGTCATTACCT
TTTAATTTTATGAGATAGAACCTACCTTTTCACTTTTTAAGCAATATCCATGTGATAGCTTAGA
GTTAAAGTTAATCTCAATGGGATCTTATGAGGCAGTAGTTATGAAATGTTTCACAGTTAGCTAT
CGATATCCTTTTTTGGCTCAAAATTAGGAATTTATTCCGTTTATTGATTCTTCATTCAATCATT
TGACAAGCGAGTCTATTGAAATCTTGTGTGCTCTAATGAAATGTTTCACAGTTAGCTATTGATA
TCCTTTTAATTCATTCCTTTTTTGGAGTGCTCACGGATGTTAATCTGACAAGCTATGATTTTCA
TTTATTGCACTACTCATCACACACTCTTTATGAAATGATGACAATCGTGTGTGGTAACATTGTC
TTTGTTCATCAAGGGAATTGAACAATTTCAGCAAGCACTAAAGATCTCGCTACAAAACATGTCT
GCACTCTATGGACTTGCGTCTGGACTGCTAGGTATGGCAAAAGAATGTAGAAATTCAGGAGCGT
TCAGATGGGCAGCTTCATTATTAGAGGTTAGTCATCTTTCAGTTTGATTGAATGGCTTGTAACT
TTTATGACAGAAAAAGACAAGAATATAATATTAATATTTTGGTACTGGATTGTCACAGGATGCA
CGTAAAGTTGCAGAAGCTAGCATCAAATCAGCTGGAAATTCATCATGTACATGGAAGTTGCATG
GTGATATTCTG
						
					

			
		

Sequences
Splice junction sequence	TGGTACTGGATTGTCACAGGATGCACGTAAAGTTGCAGAAGCTAGCATCAAATCAGCTGGAAAT TCATCATGTACATGGAAGTTGCATGGTGATATTCTGggtgagctggagggagaagaaagaaggc gactggaggagttgctcgaaagcaatcccgatgactcttcccttcattttcaacttgtaagctg taaataag
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	GGTGAGCTGGAGGGAGAAGAAAGAAGGCGACTGGAGGAGTTGCTCGAAAGCAATCCCGATGACT CTTCCCTTCATTTTCAACTTGTAAGCTGTAAATAAGAAGAAGAATAATAGCAATTATTGGTTCC TTTCTGTTTCCTTGTTTGTGCGGGTGTTTGTTCTGAGCTAATATCGGTACTAACAGAAGAAATG CACATGTGATTTTGCACTGCAGGGAGTATGCTTGTGGGAGACTCAGACGGAGAAAGAGAAAGCG GCGGAGCATTGGGTGATTTCCGTTAAACAAAACCCTAAGAACGCAGCTGCCTTTACCTACTTGG GCCATTACTACGCCACCGTTTCGGTCGATATCCCCAGAGCCATCAAGTGTTACCAGCGAGCTTT ATCCCTTAATCCCGATGATTCCGATTCTGGGGTATCTATATTCCTCCTCCTCCTCCTCCCCTTC CATATTTTTCTCTTTCGTTTTCTTTCTTCTTGGATTGACCTTAAATGAAATAAAACACGCCTAC AGGAAGCTTTGTGTGATTTGTTGGATAGTCAAGGCAAGGAGACCTTGGAGGTTGCAATTTGCAA AGATGCTTCTCACAACTCTCCCAGGGCTTTCTGGGCTTTCCGCCGATTGGGTTTTCTCCAGGTT TTCTTTTTTTCTTTTATCACTCGAAAGAATTGATTTTTTTTATAGTTTTTTTTTATTGGTGTGC ATCTGCATTCATCAAATTGGAGCAGGTGCATCAAAAGAAATGGTCTGAAGCTGTACAAAGTCTT CAACAAGCTATTCGGGGCTATCCGACTTCTCCTGATTTGTGGGAAGTAAGTTTTTCATTTAATT CTACCATCTACCTGTTCTGTTTTCAAAATGCTGTTTAATTTTGTTCACCCTTTTCTAATAATAA CTAATTGTCTTCTAGGCTCTTGGTCTTGCCTACCACCGGCTTGGCATGTTTACTGCTGCTATTA AGGTATTTCACTTTCCTTTCACCTTTTAAACTCATTTTTACCTTTACTTTCCCCTTTTCTATTT GGAGCAATATACTCTCCTAAACTTATTCAGTATGTGATTCGCATATCAAATGTGGAATTTGGGC AAGAAAGCAATAAACTTGAATGCCCTCATCAGATAATGCTACATAATGCTACTATCTCTCGTGC TTAACTTGGAAATACTTGAAAACAAGCAGTTAACTGCATGCTGTTTTCTCGTGGACAAATGAAC ATGTAGAAAGCAAGACAGTCCATTCATTTTCGATATTTTCTTATTTGTCTAAATCATATCTATG CTCACCATAACCAACGTTCATCTTCAGCTGTCTAAAGAATTCTTTCATAAATTTATCTGCTGGG TCCTATATAACCATTGAGCAATTAATTTATTGTGGCATTTTTAACAGTCCTATTCACGTGCAAT TGAATTGGAAGATACAAGAGTCTTTGCGCTAATTGAATGTGGAAACATCTTTTTGATGCTTGGT TCCTTTAGAAAGGTAAAACCTTTTTGTTATGTTTTCCCTTCTAACTCACTGAATGTCATTACCT TTTAATTTTATGAGATAGAACCTACCTTTTCACTTTTTAAGCAATATCCATGTGATAGCTTAGA GTTAAAGTTAATCTCAATGGGATCTTATGAGGCAGTAGTTATGAAATGTTTCACAGTTAGCTAT CGATATCCTTTTTTGGCTCAAAATTAGGAATTTATTCCGTTTATTGATTCTTCATTCAATCATT TGACAAGCGAGTCTATTGAAATCTTGTGTGCTCTAATGAAATGTTTCACAGTTAGCTATTGATA TCCTTTTAATTCATTCCTTTTTTGGAGTGCTCACGGATGTTAATCTGACAAGCTATGATTTTCA TTTATTGCACTACTCATCACACACTCTTTATGAAATGATGACAATCGTGTGTGGTAACATTGTC TTTGTTCATCAAGGGAATTGAACAATTTCAGCAAGCACTAAAGATCTCGCTACAAAACATGTCT GCACTCTATGGACTTGCGTCTGGACTGCTAGGTATGGCAAAAGAATGTAGAAATTCAGGAGCGT TCAGATGGGCAGCTTCATTATTAGAGGTTAGTCATCTTTCAGTTTGATTGAATGGCTTGTAACT TTTATGACAGAAAAAGACAAGAATATAATATTAATATTTTGGTACTGGATTGTCACAGGATGCA CGTAAAGTTGCAGAAGCTAGCATCAAATCAGCTGGAAATTCATCATGTACATGGAAGTTGCATG GTGATATTCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103142844

Conservation Information
Conserved circRNAs	NA
PMCS	0.103142844

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14282625-14283931(+)
14283855-14281952(+)
14282009-14283904(-)
						
						Potential amino acid sequence
						
							MFTAAIKSYSRAIELEDTRVFALIECGNIFLMLGSFRKGIEQFQQALKISLQNMSALYGLASGL
LGMAKECRNSGAFRWAASLLEDARKVAEASIKSAGNSSCTWKLHGDILGELEGEERRRLEELLE
SNPDDSSLHFQLGVCLWETQTEKEKAAEHWVISVKQNPKNAAAFTYLGHYYATVSVDIPRAIKC
YQRALSLNPDDSDSGEALCDLLDSQGKETLEVAICKDASHNSPRAFWAFRRLGFLQVHQKKWSE
AVQSLQQAIRGYPTSPDLWEALGLAYHRLGMFTAAIKSYSRAIELEDTRVFALIECGNIFLMLG
SFRKGIEQFQQALKISLQNMSALYGLASGLLGMAKECRNSGAFRWAASLLEDARKVAEASIKSA
GNSSCTWKLHGDILGELEGEERRRLEELLESNPDDSSLHFQLGVCLWETQTEKEKAAEHWVISV
KQNPKNAAAFTYLGHYYATVSVDIPRAIKCYQRALSLNPDDSDSGEALCDLLDSQGKETLEVAI
CKDASHNSPRAFWAFRRLGFLQVHQKKWSEAVQSLQQAIRGYPTSPDLWEALGLAYHRLGMFTA
AIKSYSRAIELEDTRVFALIECGNIFLMLGSFRKGIEQFQQALKISLQNMSALYGLASGLLGMA
KECRNSGAFRWAASLLEDARKVAEASIKSAGNSSCTWKLHGDILGELEGEERRRLEELLESNPD
DSSLHFQLGVCLWETQTEKEKAAEHWVISVKQNPKNAAAFTYLGHYYATVSVDIPRAIKCYQRA
LSLNPDDSDSGEALCDLLDSQGKETLEVAICKDASHNSPRAFWAFRRLGFLQVHQKKWSEAVQS
LQQAIRGYPTSPDLWEALGLAYHRLGMFTAAIKSYSRAIELEDTRVFALIECGNIFLMLGSFRK
GIEQFQQALKISLQNMSALYGLASGLLGMAKECRNSGAFRWAASLLEDARKVAEASIKSAGNSS
CTWKLHGDIL(+)
MHVKLQKLASNQLEIHHVHGSCMVIFWVSWREKKEGDWRSCSKAIPMTLPFIFNLEYACGRLRR
RKRKRRSIG*(+)
MAQVGKGSCVLRVLFNGNHPMLRRFLFLRLSLPQAYSKLKMKGRVIGIAFEQLLQSPSFFSLQL
TQNITMQLPCT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14282625-14283931(+) 14283855-14281952(+) 14282009-14283904(-)
Potential amino acid sequence	MFTAAIKSYSRAIELEDTRVFALIECGNIFLMLGSFRKGIEQFQQALKISLQNMSALYGLASGL LGMAKECRNSGAFRWAASLLEDARKVAEASIKSAGNSSCTWKLHGDILGELEGEERRRLEELLE SNPDDSSLHFQLGVCLWETQTEKEKAAEHWVISVKQNPKNAAAFTYLGHYYATVSVDIPRAIKC YQRALSLNPDDSDSGEALCDLLDSQGKETLEVAICKDASHNSPRAFWAFRRLGFLQVHQKKWSE AVQSLQQAIRGYPTSPDLWEALGLAYHRLGMFTAAIKSYSRAIELEDTRVFALIECGNIFLMLG SFRKGIEQFQQALKISLQNMSALYGLASGLLGMAKECRNSGAFRWAASLLEDARKVAEASIKSA GNSSCTWKLHGDILGELEGEERRRLEELLESNPDDSSLHFQLGVCLWETQTEKEKAAEHWVISV KQNPKNAAAFTYLGHYYATVSVDIPRAIKCYQRALSLNPDDSDSGEALCDLLDSQGKETLEVAI CKDASHNSPRAFWAFRRLGFLQVHQKKWSEAVQSLQQAIRGYPTSPDLWEALGLAYHRLGMFTA AIKSYSRAIELEDTRVFALIECGNIFLMLGSFRKGIEQFQQALKISLQNMSALYGLASGLLGMA KECRNSGAFRWAASLLEDARKVAEASIKSAGNSSCTWKLHGDILGELEGEERRRLEELLESNPD DSSLHFQLGVCLWETQTEKEKAAEHWVISVKQNPKNAAAFTYLGHYYATVSVDIPRAIKCYQRA LSLNPDDSDSGEALCDLLDSQGKETLEVAICKDASHNSPRAFWAFRRLGFLQVHQKKWSEAVQS LQQAIRGYPTSPDLWEALGLAYHRLGMFTAAIKSYSRAIELEDTRVFALIECGNIFLMLGSFRK GIEQFQQALKISLQNMSALYGLASGLLGMAKECRNSGAFRWAASLLEDARKVAEASIKSAGNSS CTWKLHGDIL(+) MHVKLQKLASNQLEIHHVHGSCMVIFWVSWREKKEGDWRSCSKAIPMTLPFIFNLEYACGRLRR RKRKRRSIG(+) MAQVGKGSCVLRVLFNGNHPMLRRFLFLRLSLPQAYSKLKMKGRVIGIAFEQLLQSPSFFSLQL TQNITMQLPCT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G185700_circ_g.1

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