Plant Circular RNA Database

Detail information of orai.012G039300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.012G039300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001303
					
						Alias
						Chr12:4883443|4884576
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr12: 4883443-4884576  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.012G039300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/19
					
						Tissues
						leaf/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.012G039300.1:1
Gorai.012G039300.2:1

General Information
CircRNA Name	orai.012G039300_circ_g.1
ID in PlantcircBase	gra_circ_001303
Alias	Chr12:4883443\|4884576
Organism	Gossypium raimondii
Position	chrChr12: 4883443-4884576 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.012G039300
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	2/19
Tissues	leaf/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.012G039300.1:1 Gorai.012G039300.2:1

			
						 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  
						
							GAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCTTTCGCAAGAA
ATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCACcttgaataagattgctgccaataatcgt
tctctcaagcagtaaatttgagcaacatcaagggctgttgatctgaatgatagccagcgatcaa
caaccacc

									
								

					

						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: 1134
Transcript exons: 4883443-4884576
CTTGAATAAGATTGCTGCCAATAATCGTTCTCTCAAGCAGTAAATTTGAGCAACATCAAGGGCT
GTTGATCTGAATGATAGCCAGCGATCAACAACCACCATAACAGAATTATCGGGAGAGGACATGA
CCTTATCTTCTTTTCCACCTGACTTACTAACAGCCAACTTTTCATCTCCATCAGTGTTGCATGC
ATCACCATCACCATCATCACTTCCATCATCATCATCATCATCACCATCACCATCAGCCCCATCA
TCATCTTCATCTTCATCATAAACAATGCCTTTTATAGGAGCCACTGCAATCTCTGTTGCAAGAA
ATAACAATGGAAATGGCCCAACAACAGTACAGTTCCTTATGAACATACCCCCATCCCCACGTGT
TATTTCATCATACATAATCAAGGGGCAATCTTCGGGTTTCTTGGGTACTAACTTTGAATTAACA
GAGCGAGTGTGTAACCGAACTTTACTGCCATTGGCAGCCTCTATAATTAATCGTTTACCCTGTT
TTACAGGGAGTATCCTCCCCACCATTGGATACAAACCAGCCACAAGGACTGCATGGAGTATTCC
AGGGTGATTTGCATTTAGACTACAACTTGAGACATCATCTGGAATAAACCCATGCCGTATTAGT
TCACCCTGGAGCTGCTTACGCATGCCAAACAGCAAGTTCATGGTGCTTGATGAGACAAAGTATT
GTGAACAAAAACGTCGCTCTAGACCCTTTCTTTTAGCATTCTTCCAGCACTCAAACGCAGCTAT
GAGTGCCAGCTGATCACTTTGCCCACCATACAGAGACGCAAGCTCATGCCTGGCAGCGGCAGCC
TTCTGCTTTTCATTTGGTCGCATGGGAAGGACAAATGGATCCTTGAAGTCTGATGCACATGCTA
GTGTCAATGCCGGATCAAGGCAATTCATCAATATGGCAAAGAAAAGCATCCTGCATGTCAATGG
ATGAACAGGAAGATAACCAAGCTTCTCTCCAAGTTCTGTCAGTTCCTCATCTTGCGTGAAAGCC
CCAATATCTTGAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCT
TTCGCAAGAAATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCAC
						
					

						Genomic sequence
						
							CTTGAATAAGATTGCTGCCAATAATCGTTCTCTCAAGCAGTAAATTTGAGCAACATCAAGGGCT
GTTGATCTGAATGATAGCCAGCGATCAACAACCACCATAACAGAATTATCGGGAGAGGACATGA
CCTTATCTTCTTTTCCACCTGACTTACTAACAGCCAACTTTTCATCTCCATCAGTGTTGCATGC
ATCACCATCACCATCATCACTTCCATCATCATCATCATCATCACCATCACCATCAGCCCCATCA
TCATCTTCATCTTCATCATAAACAATGCCTTTTATAGGAGCCACTGCAATCTCTGTTGCAAGAA
ATAACAATGGAAATGGCCCAACAACAGTACAGTTCCTTATGAACATACCCCCATCCCCACGTGT
TATTTCATCATACATAATCAAGGGGCAATCTTCGGGTTTCTTGGGTACTAACTTTGAATTAACA
GAGCGAGTGTGTAACCGAACTTTACTGCCATTGGCAGCCTCTATAATTAATCGTTTACCCTGTT
TTACAGGGAGTATCCTCCCCACCATTGGATACAAACCAGCCACAAGGACTGCATGGAGTATTCC
AGGGTGATTTGCATTTAGACTACAACTTGAGACATCATCTGGAATAAACCCATGCCGTATTAGT
TCACCCTGGAGCTGCTTACGCATGCCAAACAGCAAGTTCATGGTGCTTGATGAGACAAAGTATT
GTGAACAAAAACGTCGCTCTAGACCCTTTCTTTTAGCATTCTTCCAGCACTCAAACGCAGCTAT
GAGTGCCAGCTGATCACTTTGCCCACCATACAGAGACGCAAGCTCATGCCTGGCAGCGGCAGCC
TTCTGCTTTTCATTTGGTCGCATGGGAAGGACAAATGGATCCTTGAAGTCTGATGCACATGCTA
GTGTCAATGCCGGATCAAGGCAATTCATCAATATGGCAAAGAAAAGCATCCTGCATGTCAATGG
ATGAACAGGAAGATAACCAAGCTTCTCTCCAAGTTCTGTCAGTTCCTCATCTTGCGTGAAAGCC
CCAATATCTTGAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCT
TTCGCAAGAAATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCAC
						
					

			
		

Sequences
Splice junction sequence	GAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCTTTCGCAAGAA ATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCACcttgaataagattgctgccaataatcgt tctctcaagcagtaaatttgagcaacatcaagggctgttgatctgaatgatagccagcgatcaa caaccacc
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: 1134 Transcript exons: 4883443-4884576 CTTGAATAAGATTGCTGCCAATAATCGTTCTCTCAAGCAGTAAATTTGAGCAACATCAAGGGCT GTTGATCTGAATGATAGCCAGCGATCAACAACCACCATAACAGAATTATCGGGAGAGGACATGA CCTTATCTTCTTTTCCACCTGACTTACTAACAGCCAACTTTTCATCTCCATCAGTGTTGCATGC ATCACCATCACCATCATCACTTCCATCATCATCATCATCATCACCATCACCATCAGCCCCATCA TCATCTTCATCTTCATCATAAACAATGCCTTTTATAGGAGCCACTGCAATCTCTGTTGCAAGAA ATAACAATGGAAATGGCCCAACAACAGTACAGTTCCTTATGAACATACCCCCATCCCCACGTGT TATTTCATCATACATAATCAAGGGGCAATCTTCGGGTTTCTTGGGTACTAACTTTGAATTAACA GAGCGAGTGTGTAACCGAACTTTACTGCCATTGGCAGCCTCTATAATTAATCGTTTACCCTGTT TTACAGGGAGTATCCTCCCCACCATTGGATACAAACCAGCCACAAGGACTGCATGGAGTATTCC AGGGTGATTTGCATTTAGACTACAACTTGAGACATCATCTGGAATAAACCCATGCCGTATTAGT TCACCCTGGAGCTGCTTACGCATGCCAAACAGCAAGTTCATGGTGCTTGATGAGACAAAGTATT GTGAACAAAAACGTCGCTCTAGACCCTTTCTTTTAGCATTCTTCCAGCACTCAAACGCAGCTAT GAGTGCCAGCTGATCACTTTGCCCACCATACAGAGACGCAAGCTCATGCCTGGCAGCGGCAGCC TTCTGCTTTTCATTTGGTCGCATGGGAAGGACAAATGGATCCTTGAAGTCTGATGCACATGCTA GTGTCAATGCCGGATCAAGGCAATTCATCAATATGGCAAAGAAAAGCATCCTGCATGTCAATGG ATGAACAGGAAGATAACCAAGCTTCTCTCCAAGTTCTGTCAGTTCCTCATCTTGCGTGAAAGCC CCAATATCTTGAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCT TTCGCAAGAAATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCAC
Genomic sequence	CTTGAATAAGATTGCTGCCAATAATCGTTCTCTCAAGCAGTAAATTTGAGCAACATCAAGGGCT GTTGATCTGAATGATAGCCAGCGATCAACAACCACCATAACAGAATTATCGGGAGAGGACATGA CCTTATCTTCTTTTCCACCTGACTTACTAACAGCCAACTTTTCATCTCCATCAGTGTTGCATGC ATCACCATCACCATCATCACTTCCATCATCATCATCATCATCACCATCACCATCAGCCCCATCA TCATCTTCATCTTCATCATAAACAATGCCTTTTATAGGAGCCACTGCAATCTCTGTTGCAAGAA ATAACAATGGAAATGGCCCAACAACAGTACAGTTCCTTATGAACATACCCCCATCCCCACGTGT TATTTCATCATACATAATCAAGGGGCAATCTTCGGGTTTCTTGGGTACTAACTTTGAATTAACA GAGCGAGTGTGTAACCGAACTTTACTGCCATTGGCAGCCTCTATAATTAATCGTTTACCCTGTT TTACAGGGAGTATCCTCCCCACCATTGGATACAAACCAGCCACAAGGACTGCATGGAGTATTCC AGGGTGATTTGCATTTAGACTACAACTTGAGACATCATCTGGAATAAACCCATGCCGTATTAGT TCACCCTGGAGCTGCTTACGCATGCCAAACAGCAAGTTCATGGTGCTTGATGAGACAAAGTATT GTGAACAAAAACGTCGCTCTAGACCCTTTCTTTTAGCATTCTTCCAGCACTCAAACGCAGCTAT GAGTGCCAGCTGATCACTTTGCCCACCATACAGAGACGCAAGCTCATGCCTGGCAGCGGCAGCC TTCTGCTTTTCATTTGGTCGCATGGGAAGGACAAATGGATCCTTGAAGTCTGATGCACATGCTA GTGTCAATGCCGGATCAAGGCAATTCATCAATATGGCAAAGAAAAGCATCCTGCATGTCAATGG ATGAACAGGAAGATAACCAAGCTTCTCTCCAAGTTCTGTCAGTTCCTCATCTTGCGTGAAAGCC CCAATATCTTGAAGGACTCTAAGTGCATTATGTACAGTTTCAGAAACAGGAGGGTCCAATGTCT TTCGCAAGAAATCCTCTACTTTGCAAGCTGGGTCAAGCAATTTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000272* 						
					
						PMCS
						1.128524816

Conservation Information
Conserved circRNAs	ghi_circ_000272*
PMCS	1.128524816

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							4884388-4883445(-)
4884403-4883448(+)
						
					

						Potential amino acid sequence
						
							MLFFAILMNCLDPALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFE
CWKNAKRKGLERRFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHA
VLVAGLYPMVGRILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDG
GMFIRNCTVVGPFPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTD
GDEKLAVSKSGGKEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLD
PACKVEDFLRKTLDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAI
LMNCLDPALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAK
RKGLERRFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGL
YPMVGRILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRN
CTVVGPFPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLA
VSKSGGKEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLDPACKVE
DFLRKTLDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAILMNCLD
PALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAKRKGLER
RFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGLYPMVGR
ILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRNCTVVGP
FPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLAVSKSGG
KEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLDPACKVEDFLRKT
LDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAILMNCLDPALTLA
CASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAKRKGLERRFCSQY
FVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGLYPMVGRILPVKQ
GKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRNCTVVGPFPLLFL
ATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLAVSKSGGKEDKVM
SSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFK(-)
MNRKITKLLSKFCQFLILRESPNILKDSKCIMYSFRNRRVQCLSQEILYFASWVKQFHLE*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	4884388-4883445(-) 4884403-4883448(+)
Potential amino acid sequence	MLFFAILMNCLDPALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFE CWKNAKRKGLERRFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHA VLVAGLYPMVGRILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDG GMFIRNCTVVGPFPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTD GDEKLAVSKSGGKEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLD PACKVEDFLRKTLDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAI LMNCLDPALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAK RKGLERRFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGL YPMVGRILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRN CTVVGPFPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLA VSKSGGKEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLDPACKVE DFLRKTLDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAILMNCLD PALTLACASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAKRKGLER RFCSQYFVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGLYPMVGR ILPVKQGKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRNCTVVGP FPLLFLATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLAVSKSGG KEDKVMSSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFKVKLLDPACKVEDFLRKT LDPPVSETVHNALRVLQDIGAFTQDEELTELGEKLGYLPVHPLTCRMLFFAILMNCLDPALTLA CASDFKDPFVLPMRPNEKQKAAAARHELASLYGGQSDQLALIAAFECWKNAKRKGLERRFCSQY FVSSSTMNLLFGMRKQLQGELIRHGFIPDDVSSCSLNANHPGILHAVLVAGLYPMVGRILPVKQ GKRLIIEAANGSKVRLHTRSVNSKLVPKKPEDCPLIMYDEITRGDGGMFIRNCTVVGPFPLLFL ATEIAVAPIKGIVYDEDEDDDGADGDGDDDDDDGSDDGDGDACNTDGDEKLAVSKSGGKEDKVM SSPDNSVMVVVDRWLSFRSTALDVAQIYCLRERLLAAILFK(-) MNRKITKLLSKFCQFLILRESPNILKDSKCIMYSFRNRRVQCLSQEILYFASWVKQFHLE*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.012G039300_circ_g.1

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