Plant Circular RNA Database

Detail information of orai.012G047800_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.012G047800_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001305
					
						Alias
						Chr12:6029120|6034125
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr12: 6029120-6034125  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.012G047800						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.012G047800_circ_g.2 						
					
						Support reads
						2/11
					
						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.012G047800.1:6

General Information
CircRNA Name	orai.012G047800_circ_g.1
ID in PlantcircBase	gra_circ_001305
Alias	Chr12:6029120\|6034125
Organism	Gossypium raimondii
Position	chrChr12: 6029120-6034125 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.012G047800
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.012G047800_circ_g.2
Support reads	2/11
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.012G047800.1:6

			
						 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  
						
							TTGATGGACTACCCAGCCCAGCCATTGATATAATATCACCAGCTCCTGCACTATCAATAAGAAC
CATGCTTGTACCCTTCTTTTTCATTAGCTTCACAACcttgatggacaggtcaatgacaatctag
ttctaccaacatttccaggaacaggacccatatcagcaacctcagctcgcctatgagatagagc
ttccataa

						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: 590
Transcript exons: 6029120-6029244,6029328-6029382,6030909-6030972,6031091-
6031211,6032656-6032754,6034000-6034125
CTTGATGGACAGGTCAATGACAATCTAGTTCTACCAACATTTCCAGGAACAGGACCCATATCAG
CAACCTCAGCTCGCCTATGAGATAGAGCTTCCATAACTAATCCTACATGCTCATCATTCACCTC
AATGGTCACTTCCTCAATAGGCTCCAGCTTTTGACCTTTCTCAACTTTATACATCACTTTCGGT
GGTGAAACGGACAGCTCAAATCCTTCACGTCTCATATTCTCAATCAAGATACCCAGCTGCAGTT
CTCCCCTCCCCTGAACCTCGAAAGTATCTGCTATGCCTGGAAGCACATTTATGGCGAGATTTGT
TTCAGATTCAGCCATTAGTCGATCACCAATTTTTCCTCCGGTCAAATGGGTACCATCACGACCT
GCTAAAGGAGAATCATTGACACCAAAAGTCATGGAAATGGTTGGGGGGTCCAACTCAACGGTTG
GCAATGCAGCCATAACCTCTGTATTTGCCACTGTATGGCCAATTGATGGACTACCCAGCCCAGC
CATTGATATAATATCACCAGCTCCTGCACTATCAATAAGAACCATGCTTGTACCCTTCTTTTTC
ATTAGCTTCACAAC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTGATGGACTACCCAGCCCAGCCATTGATATAATATCACCAGCTCCTGCACTATCAATAAGAAC CATGCTTGTACCCTTCTTTTTCATTAGCTTCACAACcttgatggacaggtcaatgacaatctag ttctaccaacatttccaggaacaggacccatatcagcaacctcagctcgcctatgagatagagc ttccataa
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: 590 Transcript exons: 6029120-6029244,6029328-6029382,6030909-6030972,6031091- 6031211,6032656-6032754,6034000-6034125 CTTGATGGACAGGTCAATGACAATCTAGTTCTACCAACATTTCCAGGAACAGGACCCATATCAG CAACCTCAGCTCGCCTATGAGATAGAGCTTCCATAACTAATCCTACATGCTCATCATTCACCTC AATGGTCACTTCCTCAATAGGCTCCAGCTTTTGACCTTTCTCAACTTTATACATCACTTTCGGT GGTGAAACGGACAGCTCAAATCCTTCACGTCTCATATTCTCAATCAAGATACCCAGCTGCAGTT CTCCCCTCCCCTGAACCTCGAAAGTATCTGCTATGCCTGGAAGCACATTTATGGCGAGATTTGT TTCAGATTCAGCCATTAGTCGATCACCAATTTTTCCTCCGGTCAAATGGGTACCATCACGACCT GCTAAAGGAGAATCATTGACACCAAAAGTCATGGAAATGGTTGGGGGGTCCAACTCAACGGTTG GCAATGCAGCCATAACCTCTGTATTTGCCACTGTATGGCCAATTGATGGACTACCCAGCCCAGC CATTGATATAATATCACCAGCTCCTGCACTATCAATAAGAACCATGCTTGTACCCTTCTTTTTC ATTAGCTTCACAAC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.848812948

Conservation Information
Conserved circRNAs	NA
PMCS	0.848812948

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6034114-6034121(-)
6031135-6029144(+)
						
						Potential amino acid sequence
						
							MKKKGTSMVLIDSAGAGDIISMAGLGSPSIGHTVANTEVMAALPTVELDPPTISMTFGVNDSPL
AGRDGTHLTGGKIGDRLMAESETNLAINVLPGIADTFEVQGRGELQLGILIENMRREGFELSVS
PPKVMYKVEKGQKLEPIEEVTIEVNDEHVGLVMEALSHRRAEVADMGPVPGNVGRTRLSLTCPS
RL*(-)
MPGSTFMARFVSDSAISRSPIFPPVKWVPSRPAKGESLTPKVMEMVGGSNSTVGNAAITSVFAT
VWPIDGLPSPAIDIISPAPALSIRTMLVPFFFISFTTLMDRSMTI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6034114-6034121(-) 6031135-6029144(+)
Potential amino acid sequence	MKKKGTSMVLIDSAGAGDIISMAGLGSPSIGHTVANTEVMAALPTVELDPPTISMTFGVNDSPL AGRDGTHLTGGKIGDRLMAESETNLAINVLPGIADTFEVQGRGELQLGILIENMRREGFELSVS PPKVMYKVEKGQKLEPIEEVTIEVNDEHVGLVMEALSHRRAEVADMGPVPGNVGRTRLSLTCPS RL(-) MPGSTFMARFVSDSAISRSPIFPPVKWVPSRPAKGESLTPKVMEMVGGSNSTVGNAAITSVFAT VWPIDGLPSPAIDIISPAPALSIRTMLVPFFFISFTTLMDRSMTI(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.012G047800_circ_g.1

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