Plant Circular RNA Database

Detail information of orai.001G018700_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.001G018700_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000014
					
						Alias
						Chr01:1741045|1742542
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr01: 1741045-1742542  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.001G018700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						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.001G018700.6:4
Gorai.001G018700.5:4
Gorai.001G018700.2:4
Gorai.001G018700.3:4
Gorai.001G018700.4:4
Gorai.001G018700.1:4

General Information
CircRNA Name	orai.001G018700_circ_g.1
ID in PlantcircBase	gra_circ_000014
Alias	Chr01:1741045\|1742542
Organism	Gossypium raimondii
Position	chrChr01: 1741045-1742542 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.001G018700
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	3
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.001G018700.6:4 Gorai.001G018700.5:4 Gorai.001G018700.2:4 Gorai.001G018700.3:4 Gorai.001G018700.4:4 Gorai.001G018700.1:4

			
						 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  
						
							GCCTCAAAGAATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATGAA
ATGATCTGCAAGGACAGTCCATATTCTAGCCCAGACcttgtaaaaagtgttgaaaaggttgcac
agcaactgaagtgaatgaatgctgctttcacgaaacaactcatctccggaggaaattaagctct
cctttcca

									
								

					

						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: 870
Transcript exons: 1741045-1741401,1741774-1741922,1742003-1742126,1742303-
1742542
CTTGTAAAAAGTGTTGAAAAGGTTGCACAGCAACTGAAGTGAATGAATGCTGCTTTCACGAAAC
AACTCATCTCCGGAGGAAATTAAGCTCTCCTTTCCAGCATGTCTCACATGATCAAACATGGGAA
ACAAGACACGATGGAAAATGCTCTCCCAAAATGATGTTGAGAACTTGCTACCTCTTTCATTCAG
CAAATCAAACAAAACTTCAAGTGCACAACTCCTAACCTCTGGTCTTGAATCTGATGTCAGATCA
GACAACCCAGCAAGCATTGGGAACCAATAATGCTCGGTTACGTCAAATGCTGAGTCAGCATCAA
CACTAATTGGTTTAAGAGCTCCACCAGGTATACGTCCCTCTGCTAGACGGTCTTCACATATACG
GAGAAGGGCCACAGCCTTCAAACTTATACGGTGGGAAGTTTTATTGTTGGCGAACCTAATAAGA
CAGTTGACACAGTCCATAAAACAGTCTCCAACAACTTGATCAAAGTGTTCCAGTACAACCTGTT
CCACATTCTCAAATGCACTTTCAACAATTGATTCCATATCATCATCAGCGGCAGCAGTGAAAAT
CATGAAAACACTTCTCCATCCAGATTTTATGCTTCCAACCTTTGATTTTATCATCTGCACAATG
CAGTCAACAATAAGGCTCCTTATGGTTCCACTTCGACTATTCCGCATGAGGATGACAAAAGGTT
TAAGAATATCATTTTGAAAAGTAAAATTGGTCAATTCAGCACGCTCCAAATACTTCATACCAAG
CTGCCTCAAAGAATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATG
AAATGATCTGCAAGGACAGTCCATATTCTAGCCCAGAC
						
					

						Genomic sequence
						
							CTTGTAAAAAGTGTTGAAAAGGTTGCACAGCAACTGAAGTGAATGAATGCTGCTTTCACGAAAC
AACTCATCTCCGGAGGAAATTAAGCTCTCCTTTCCAGCATGTCTCACATGATCAAACATGGGAA
ACAAGACACGATGGAAAATGCTCTCCCAAAATGATGTTGAGAACTTGCTACCTCTTTCATTCAG
CAAATCAAACAAAACTTCAAGTGCACAACTCCTAACCTCTGGTCTTGAATCTGATGTCAGATCA
GACAACCCAGCAAGCATTGGGAACCAATAATGCTCGGTTACGTCAAATGCTGAGTCAGCATCAA
CACTAATTGGTTTAAGAGCTCCACCAGGTATACGTCCCTGTAATTGAAACACAAATGGAAATAC
TTACACAAAACATCCTTTAGAAAGAAAAGAATGCAGAACTTAAGCAAATTCACAAACATGTTAG
AAATAATCAATGAGATGAAACAGCTAATATAAACTTTGCTTTTCCCTGATAAGAGAAAAAGAGT
ACATCTAAATGTTCGAAGTTTAATAAAAAATTACAGCATCTTATCATAAGAAAGACAATGAACA
AAGTCCTCTTGGTAGAAGGGCTGGTGATCATTGCTAGTTTTAGACCATACTGTGACTATTTTAG
TCCTACAGAGGAAGAGATCGAGAGGGTAGAACAACATGCCCAACTAACAAATCAAGCTTAAGTA
TCAAGCTTAAGTATGGAAACCAAACCTCTGCTAGACGGTCTTCACATATACGGAGAAGGGCCAC
AGCCTTCAAACTTATACGGTGGGAAGTTTTATTGTTGGCGAACCTAATAAGACAGTTGACACAG
TCCATAAAACAGTCTCCAACAACTTGATCAAAGTGTTCCAGTACAACTGCAAAGAACCTGCTGT
TAAATTAATTGGACAATGAAAACAAGAATCAGTCAGGAAAAAGGAAAAAGGCAGTTTCTTACCC
TGTTCCACATTCTCAAATGCACTTTCAACAATTGATTCCATATCATCATCAGCGGCAGCAGTGA
AAATCATGAAAACACTTCTCCATCCAGATTTTATGCTTCCAACCTTTGATTTTATCATCTGCAA
TAACATCATGGTAAGTCTGAGTGTCACACAGGATGCCCACGGGAATAAGAAAAAACTGACAGCA
AAGGCTTAAAATTAAAAATGTATTAACTACAAAATATATGATAGAGGGAAAAACAACAACCAGC
AGGAGAGTTAGATGTTCAAGAAATCTGAGCAAGCAGACATACCTGCACAATGCAGTCAACAATA
AGGCTCCTTATGGTTCCACTTCGACTATTCCGCATGAGGATGACAAAAGGTTTAAGAATATCAT
TTTGAAAAGTAAAATTGGTCAATTCAGCACGCTCCAAATACTTCATACCAAGCTGCCTCAAAGA
ATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATGAAATGATCTGCA
AGGACAGTCCATATTCTAGCCCAGAC
						
					

			
		

Sequences
Splice junction sequence	GCCTCAAAGAATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATGAA ATGATCTGCAAGGACAGTCCATATTCTAGCCCAGACcttgtaaaaagtgttgaaaaggttgcac agcaactgaagtgaatgaatgctgctttcacgaaacaactcatctccggaggaaattaagctct cctttcca
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: 870 Transcript exons: 1741045-1741401,1741774-1741922,1742003-1742126,1742303- 1742542 CTTGTAAAAAGTGTTGAAAAGGTTGCACAGCAACTGAAGTGAATGAATGCTGCTTTCACGAAAC AACTCATCTCCGGAGGAAATTAAGCTCTCCTTTCCAGCATGTCTCACATGATCAAACATGGGAA ACAAGACACGATGGAAAATGCTCTCCCAAAATGATGTTGAGAACTTGCTACCTCTTTCATTCAG CAAATCAAACAAAACTTCAAGTGCACAACTCCTAACCTCTGGTCTTGAATCTGATGTCAGATCA GACAACCCAGCAAGCATTGGGAACCAATAATGCTCGGTTACGTCAAATGCTGAGTCAGCATCAA CACTAATTGGTTTAAGAGCTCCACCAGGTATACGTCCCTCTGCTAGACGGTCTTCACATATACG GAGAAGGGCCACAGCCTTCAAACTTATACGGTGGGAAGTTTTATTGTTGGCGAACCTAATAAGA CAGTTGACACAGTCCATAAAACAGTCTCCAACAACTTGATCAAAGTGTTCCAGTACAACCTGTT CCACATTCTCAAATGCACTTTCAACAATTGATTCCATATCATCATCAGCGGCAGCAGTGAAAAT CATGAAAACACTTCTCCATCCAGATTTTATGCTTCCAACCTTTGATTTTATCATCTGCACAATG CAGTCAACAATAAGGCTCCTTATGGTTCCACTTCGACTATTCCGCATGAGGATGACAAAAGGTT TAAGAATATCATTTTGAAAAGTAAAATTGGTCAATTCAGCACGCTCCAAATACTTCATACCAAG CTGCCTCAAAGAATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATG AAATGATCTGCAAGGACAGTCCATATTCTAGCCCAGAC
Genomic sequence	CTTGTAAAAAGTGTTGAAAAGGTTGCACAGCAACTGAAGTGAATGAATGCTGCTTTCACGAAAC AACTCATCTCCGGAGGAAATTAAGCTCTCCTTTCCAGCATGTCTCACATGATCAAACATGGGAA ACAAGACACGATGGAAAATGCTCTCCCAAAATGATGTTGAGAACTTGCTACCTCTTTCATTCAG CAAATCAAACAAAACTTCAAGTGCACAACTCCTAACCTCTGGTCTTGAATCTGATGTCAGATCA GACAACCCAGCAAGCATTGGGAACCAATAATGCTCGGTTACGTCAAATGCTGAGTCAGCATCAA CACTAATTGGTTTAAGAGCTCCACCAGGTATACGTCCCTGTAATTGAAACACAAATGGAAATAC TTACACAAAACATCCTTTAGAAAGAAAAGAATGCAGAACTTAAGCAAATTCACAAACATGTTAG AAATAATCAATGAGATGAAACAGCTAATATAAACTTTGCTTTTCCCTGATAAGAGAAAAAGAGT ACATCTAAATGTTCGAAGTTTAATAAAAAATTACAGCATCTTATCATAAGAAAGACAATGAACA AAGTCCTCTTGGTAGAAGGGCTGGTGATCATTGCTAGTTTTAGACCATACTGTGACTATTTTAG TCCTACAGAGGAAGAGATCGAGAGGGTAGAACAACATGCCCAACTAACAAATCAAGCTTAAGTA TCAAGCTTAAGTATGGAAACCAAACCTCTGCTAGACGGTCTTCACATATACGGAGAAGGGCCAC AGCCTTCAAACTTATACGGTGGGAAGTTTTATTGTTGGCGAACCTAATAAGACAGTTGACACAG TCCATAAAACAGTCTCCAACAACTTGATCAAAGTGTTCCAGTACAACTGCAAAGAACCTGCTGT TAAATTAATTGGACAATGAAAACAAGAATCAGTCAGGAAAAAGGAAAAAGGCAGTTTCTTACCC TGTTCCACATTCTCAAATGCACTTTCAACAATTGATTCCATATCATCATCAGCGGCAGCAGTGA AAATCATGAAAACACTTCTCCATCCAGATTTTATGCTTCCAACCTTTGATTTTATCATCTGCAA TAACATCATGGTAAGTCTGAGTGTCACACAGGATGCCCACGGGAATAAGAAAAAACTGACAGCA AAGGCTTAAAATTAAAAATGTATTAACTACAAAATATATGATAGAGGGAAAAACAACAACCAGC AGGAGAGTTAGATGTTCAAGAAATCTGAGCAAGCAGACATACCTGCACAATGCAGTCAACAATA AGGCTCCTTATGGTTCCACTTCGACTATTCCGCATGAGGATGACAAAAGGTTTAAGAATATCAT TTTGAAAAGTAAAATTGGTCAATTCAGCACGCTCCAAATACTTCATACCAAGCTGCCTCAAAGA ATCTATAGCATACATAGCAATTTTCTCATCTGCATGGCTGCCAGCAGAAATGAAATGATCTGCA AGGACAGTCCATATTCTAGCCCAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.540078221

Conservation Information
Conserved circRNAs	NA
PMCS	0.540078221

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1742468-1741047(-)
1741116-1742457(-)
1742486-1741083(+)
						
						Potential amino acid sequence
						
							MYAIDSLRQLGMKYLERAELTNFTFQNDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSI
KSGWRSVFMIFTAAADDDMESIVESAFENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHR
ISLKAVALLRICEDRLAEGRIPGGALKPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRS
CALEVLFDLLNERGSKFSTSFWESIFHRVLFPMFDHVRHAGKESLISSGDELFRESSIHSLQLL
CNLFNTFYKVWARIWTVLADHFISAGSHADEKIAMYAIDSLRQLGMKYLERAELTNFTFQNDIL
KPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSIKSGWRSVFMIFTAAADDDMESIVESAFENV
EQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHRISLKAVALLRICEDRLAEGRIPGGALKPIS
VDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRSCALEVLFDLLNERGSKFSTSFWESIFHRVL
FPMFDHVRHAGKESLISSGDELFRESSIHSLQLLCNLFNTFYKVWARIWTVLADHFISAGSHAD
EKIAMYAIDSLRQLGMKYLERAELTNFTFQNDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSK
VGSIKSGWRSVFMIFTAAADDDMESIVESAFENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNK
TSHRISLKAVALLRICEDRLAEGRIPGGALKPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRP
EVRSCALEVLFDLLNERGSKFSTSFWESIFHRVLFPMFDHVRHAGKESLISSGDELFRESSIHS
LQLLCNLFNTFYKVWARIWTVLADHFISAGSHADEKIAMYAIDSLRQLGMKYLERAELTNFTFQ
NDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSIKSGWRSVFMIFTAAADDDMESIVESA
FENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHRISLKAVALLRICEDRLAEGRIPGGAL
KPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRSCALEVLFDLLNERGSKFSTSFWESIF
HRVLFPMFDHVRHAGKESLISSGDELFRESSIHSLQLLCNLFNTFYK(-)
MSCFVKAAFIHFSCCATFSTLFTRSGLEYGLSLQIISFLLAAMQMRKLLCML*(-)
MAASRNEMICKDSPYSSPDLVKSVEKVAQQLK*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1742468-1741047(-) 1741116-1742457(-) 1742486-1741083(+)
Potential amino acid sequence	MYAIDSLRQLGMKYLERAELTNFTFQNDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSI KSGWRSVFMIFTAAADDDMESIVESAFENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHR ISLKAVALLRICEDRLAEGRIPGGALKPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRS CALEVLFDLLNERGSKFSTSFWESIFHRVLFPMFDHVRHAGKESLISSGDELFRESSIHSLQLL CNLFNTFYKVWARIWTVLADHFISAGSHADEKIAMYAIDSLRQLGMKYLERAELTNFTFQNDIL KPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSIKSGWRSVFMIFTAAADDDMESIVESAFENV EQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHRISLKAVALLRICEDRLAEGRIPGGALKPIS VDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRSCALEVLFDLLNERGSKFSTSFWESIFHRVL FPMFDHVRHAGKESLISSGDELFRESSIHSLQLLCNLFNTFYKVWARIWTVLADHFISAGSHAD EKIAMYAIDSLRQLGMKYLERAELTNFTFQNDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSK VGSIKSGWRSVFMIFTAAADDDMESIVESAFENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNK TSHRISLKAVALLRICEDRLAEGRIPGGALKPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRP EVRSCALEVLFDLLNERGSKFSTSFWESIFHRVLFPMFDHVRHAGKESLISSGDELFRESSIHS LQLLCNLFNTFYKVWARIWTVLADHFISAGSHADEKIAMYAIDSLRQLGMKYLERAELTNFTFQ NDILKPFVILMRNSRSGTIRSLIVDCIVQMIKSKVGSIKSGWRSVFMIFTAAADDDMESIVESA FENVEQVVLEHFDQVVGDCFMDCVNCLIRFANNKTSHRISLKAVALLRICEDRLAEGRIPGGAL KPISVDADSAFDVTEHYWFPMLAGLSDLTSDSRPEVRSCALEVLFDLLNERGSKFSTSFWESIF HRVLFPMFDHVRHAGKESLISSGDELFRESSIHSLQLLCNLFNTFYK(-) MSCFVKAAFIHFSCCATFSTLFTRSGLEYGLSLQIISFLLAAMQMRKLLCML(-) MAASRNEMICKDSPYSSPDLVKSVEKVAQQLK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.001G018700_circ_g.1

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