Plant Circular RNA Database

Detail information of orai.009G268300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G268300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000983
					
						Alias
						Chr09:22340934|22341674
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 22340934-22341674  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G268300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						14
					
						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  
						
							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.009G268300.1:3
Gorai.009G268300.5:1
Gorai.009G268300.3:3
Gorai.009G268300.2:3
Gorai.009G268300.4:1

General Information
CircRNA Name	orai.009G268300_circ_g.1
ID in PlantcircBase	gra_circ_000983
Alias	Chr09:22340934\|22341674
Organism	Gossypium raimondii
Position	chrChr09: 22340934-22341674 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G268300
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	14
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	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.009G268300.1:3 Gorai.009G268300.5:1 Gorai.009G268300.3:3 Gorai.009G268300.2:3 Gorai.009G268300.4:1

			
						 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  
						
							GATTTTCATAGCTGAAGCCGGATTGACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATCT
GAGAAGCCACCAGCACCACGTAGAAAAACACTTGTCctcgagccttcaagccacatctcggtga
tgagtgcttcaccaggatacacatgcaaaaggaaccgtgcaaagatgcttttgaccatgtctgg
atctcccc

						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: 396
Transcript exons: 22340934-22341107,22341221-22341291,22341524-22341674
CTCGAGCCTTCAAGCCACATCTCGGTGATGAGTGCTTCACCAGGATACACATGCAAAAGGAACC
GTGCAAAGATGCTTTTGACCATGTCTGGATCTCCCCTGCAAATACATTTGATGATAGCCCGTAC
CGCAAACCCAAGGGTACACAATCCATGCAAAATTGGCCTTGAAAATCCTGCGACCTTTGCAATC
ATAGGATCTGAATGCAGAGGATTATAGTCACCGGATAACCTATACAATAAAGCCTGAGGTGGTT
GGGTACAATCCTCAAATACTGCAGAAGGTTGAGTTTTTGGGATTTTCATAGCTGAAGCCGGATT
GACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATCTGAGAAGCCACCAGCACCACGTAGA
AAAACACTTGTC
						
						Genomic sequence
						
							CTCGAGCCTTCAAGCCACATCTCGGTGATGAGTGCTTCACCAGGATACACATGCAAAAGGAACC
GTGCAAAGATGCTTTTGACCATGTCTGGATCTCCCCTGCAAATACATTTGATGATAGCCCGTAC
CGCAAACCCAAGGGTACACAATCCATGCAAAATTGGCCTTGAAAATCTATGAACATGGGATAGG
CAAAGCATAAATCAGTATAAAAGCTTAGGATGCAAAGGAGCTGTGTCAAGTAATGCAACTAATA
GCCATAGCCTCAACATAAGTAATGAACTAACCCTGCGACCTTTGCAATCATAGGATCTGAATGC
AGAGGATTATAGTCACCGGATAACCTATACAATAAAGCCTGCCAAAGCCAAAAAATAGTAGTTC
AAAACTTTTGGAGAAGCTTGTCATCATAAAAAAGCATCTCATAGCACAAGCTGTCGAAGCAGAA
GTTGATACCAGATCAGACTAATCCACAGACTATATAGTATATGGACAAAAAGAGAATTAACTGG
AGAACATCTCTTTCTTTTTTATTTTGAAAGCAACATAAAAGCTCTTAGGGATAAAATTCTAGTA
TTGTTGCTACATGCCTGAGGTGGTTGGGTACAATCCTCAAATACTGCAGAAGGTTGAGTTTTTG
GGATTTTCATAGCTGAAGCCGGATTGACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATC
TGAGAAGCCACCAGCACCACGTAGAAAAACACTTGTC

Sequences
Splice junction sequence	GATTTTCATAGCTGAAGCCGGATTGACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATCT GAGAAGCCACCAGCACCACGTAGAAAAACACTTGTCctcgagccttcaagccacatctcggtga tgagtgcttcaccaggatacacatgcaaaaggaaccgtgcaaagatgcttttgaccatgtctgg atctcccc
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: 396 Transcript exons: 22340934-22341107,22341221-22341291,22341524-22341674 CTCGAGCCTTCAAGCCACATCTCGGTGATGAGTGCTTCACCAGGATACACATGCAAAAGGAACC GTGCAAAGATGCTTTTGACCATGTCTGGATCTCCCCTGCAAATACATTTGATGATAGCCCGTAC CGCAAACCCAAGGGTACACAATCCATGCAAAATTGGCCTTGAAAATCCTGCGACCTTTGCAATC ATAGGATCTGAATGCAGAGGATTATAGTCACCGGATAACCTATACAATAAAGCCTGAGGTGGTT GGGTACAATCCTCAAATACTGCAGAAGGTTGAGTTTTTGGGATTTTCATAGCTGAAGCCGGATT GACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATCTGAGAAGCCACCAGCACCACGTAGA AAAACACTTGTC
Genomic sequence	CTCGAGCCTTCAAGCCACATCTCGGTGATGAGTGCTTCACCAGGATACACATGCAAAAGGAACC GTGCAAAGATGCTTTTGACCATGTCTGGATCTCCCCTGCAAATACATTTGATGATAGCCCGTAC CGCAAACCCAAGGGTACACAATCCATGCAAAATTGGCCTTGAAAATCTATGAACATGGGATAGG CAAAGCATAAATCAGTATAAAAGCTTAGGATGCAAAGGAGCTGTGTCAAGTAATGCAACTAATA GCCATAGCCTCAACATAAGTAATGAACTAACCCTGCGACCTTTGCAATCATAGGATCTGAATGC AGAGGATTATAGTCACCGGATAACCTATACAATAAAGCCTGCCAAAGCCAAAAAATAGTAGTTC AAAACTTTTGGAGAAGCTTGTCATCATAAAAAAGCATCTCATAGCACAAGCTGTCGAAGCAGAA GTTGATACCAGATCAGACTAATCCACAGACTATATAGTATATGGACAAAAAGAGAATTAACTGG AGAACATCTCTTTCTTTTTTATTTTGAAAGCAACATAAAAGCTCTTAGGGATAAAATTCTAGTA TTGTTGCTACATGCCTGAGGTGGTTGGGTACAATCCTCAAATACTGCAGAAGGTTGAGTTTTTG GGATTTTCATAGCTGAAGCCGGATTGACTGGATAGTTTGAGTATGTAAAGGGCTTAGATGGATC TGAGAAGCCACCAGCACCACGTAGAAAAACACTTGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000095 						
					
						PMCS
						0.644560054

Conservation Information
Conserved circRNAs	gar_circ_000095
PMCS	0.644560054

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22341020-22341466(-)
22341088-22341582(-)
22341631-22340958(+)
						
						Potential amino acid sequence
						
							MVKSIFARFLLHVYPGEALITEMWLEGSRTSVFLRGAGGFSDPSKPFTYSNYPVNPASAMKIPK
TQPSAVFEDCTQPPQACSNNTRILSLRAFMLLSK*(-)
MDCVPLGLRYGLSSNVFAGEIQTWSKASLHGSFCMCILVKHSSPRCGLKARGQVFFYVVLVASQ
IHLSPLHTQTIQSIRLQL*(-)
MDLRSHQHHVEKHLSSSLQATSR*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22341020-22341466(-) 22341088-22341582(-) 22341631-22340958(+)
Potential amino acid sequence	MVKSIFARFLLHVYPGEALITEMWLEGSRTSVFLRGAGGFSDPSKPFTYSNYPVNPASAMKIPK TQPSAVFEDCTQPPQACSNNTRILSLRAFMLLSK(-) MDCVPLGLRYGLSSNVFAGEIQTWSKASLHGSFCMCILVKHSSPRCGLKARGQVFFYVVLVASQ IHLSPLHTQTIQSIRLQL(-) MDLRSHQHHVEKHLSSSLQATSR*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G268300_circ_g.1

Address

Any questions?

Supported by