Plant Circular RNA Database

Detail information of orai.004G173300_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.004G173300_circ_g.2
					
						ID in PlantcircBase
						gra_circ_000376
					
						Alias
						Chr04:47476651|47480483
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr04: 47476651-47480483  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.004G173300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.004G173300_circ_g.1 orai.004G173300_circ_g.3 						
					
						Support reads
						9/14
					
						Tissues
						leaf/ovule
					
						Exon boundary  
						
							Yes-No							"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.004G173300.1:5

General Information
CircRNA Name	orai.004G173300_circ_g.2
ID in PlantcircBase	gra_circ_000376
Alias	Chr04:47476651\|47480483
Organism	Gossypium raimondii
Position	chrChr04: 47476651-47480483 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.004G173300
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.004G173300_circ_g.1 orai.004G173300_circ_g.3
Support reads	9/14
Tissues	leaf/ovule
Exon boundary	Yes-No "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.004G173300.1:5

			
						 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  
						
							ACCATTCATGCAGGATATCTAAATAATGCAAGGACCTATATGCAGCTTTGATGAAAAAGTTTCT
TGCTTCAGTTTCTACTGTTGCTCTCCATATCAAAAGagttctttgcaagttctttgctcatgga
gcgtgcctaaaaggggagcattgtgagttttcccatcaatggaagcacccacctaacaatgtag
gaagtttc

									
								

					

						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
						
							AGTTCTTTGCAAGTTCTTTGCTCATGGAGCGTGCCTAAAAGGGGAGCATTGTGAGTTTTCCCAT
CAATGGAAGCACCCACCTAACAATGTAGGAAGTTTCCCTTCCCTTCGCCTTTTTGCATTTACTT
GTTGATGATGCTTTTTGGTTACCTTATTCTTGTTTCTTGTGCATTCCAGATTTGCACGTACTAC
CAGAAAGGAAACTGCTTTTATGGTAGTCGGTGCAGATATGAACATGTTAAGGCTTCTCAATCAG
ATCCATCTGCTTCGTCTTCATCAACAGCACCTCAACAATCTACGTTATCAGATACTATGCCTTT
AGCTCCTTCAAAAACTGCATTTGTTGGGTCGGTTGTATCTCCAGCTGCTTCTAGTAAGGTTCCT
GGTTGCAGTAGAGCTTGCCTTGCTCCCTTCAAACAACCATGCGATTTGGAATCTGGGCCTCAAG
ATCTATCAGATAATGGTGAATCTATAGAGCCTAGGAGAACTAATCCAGTTGAACGTTCTATCTG
CTCATTTGCTGTAGCTGGAAATTGTCCCCGTGGAGAAAAATGTCCTCATATTCATGGAGACTTG
TGTCCCACCTGTGAGAAACATTGTTTGCATCCTTTTAGACCTGAAGAAAGGGAGGAACATATAA
AAATGTGTAAGAAAAAGAAAAAATACCTTGATGCATTGAAGCATAGTCAAGAAATAGAGTGTAG
TGTGTGCTTGGATCGGGTTCTCTCGAAGCCCACAGCAGCTGAACGTAAGTTTGGGTTGCTTTCA
GAATGTGATCATCCATTTTGCATATCTTGCATTAGAAATTGGCGTAGCAGTTCTCCTTCCTCTG
GAATGGATGTCAATACTGCCTTGAGGGCTTGCCCAATCTGCCGCAAGCTATCATACTTTGTCAT
TCCAAGTGTCATTTGGTATTGGACTCCAGAAGAAAAGCAGCGAATTGTAGATGGCTACAAGGCA
AAATTGAGGTATTGTCATTGCGGTTCAATGCTTCTTACATTTCCTGCTTACATGCACTATTAGT
TTAAGTTGTCAAAAGTATGTACATGTACATGTAGATATATATATATATATATATATTGATGGAT
TATTTGGATGATTTGTAAAATCTATCTTATGATGGGGTGAATTAGATCATCTAATTTCCCCTCC
ATACTTAAAGGAAGACAGAATCTGTTGGATTTTCAAAAAGAAATTACCGTGTAGAATGTTTTTA
GGCTGTGATCTGACTTTCAAGCTTAGATACCTAAATCACATAAGAGAAGATGCTAAACCTAGGA
TTTGTAGATTTGTATGGCAAATTTACTTTTCTAACTATTAAATCTCCATTTTTGTTCTTCACCC
TTGCAGGACAATAAATTGCAAGCACTTCAACTTTGGAAACGGGAACTGTCCTTTTGGGAATAGT
TGTTTTTACAAGGTAACAATTCGCTATTCATTCTTCAATTCATTGCAAAACCTATAAATTTCTT
TTTCTAGTACTTTTTAATGTATGCCTTCTTGGTTCTTCTCAACTCTAAGCCGTTTAGATGTGAA
TTTTATATTATAGTTTTCTGTTTCGCCATTTTCCCTGTCCCCTTCTTTCTGGTGATTCCTTGTC
CTTTTCTCTTATTTTTGTCACTATGATTGCATAATGATTTAGCTGGTTCTTAGCCCAATCTCAA
CCATGATGTCTAACAGTTTCACTTTTATTTGAAGAGATCGACTTGGGAAAATAAGTTTGGTTGT
ACTTAAATTAACATTTGACAACCACTAGATTTTATCTTAATTTCCTAAAACAAAAGTGCCGTTA
ATAGAGGGTAAGAGGAACAAAGATGAGCAGTGGGTGATATGGGTCTAGACAACAGTTAGGCAGA
GATGATTAATTATATTCAAGATGTGGACTGAGTGAATAGAGGGAAAAGTGGTAATTCGACAGAC
TTAATTCCGTACAAGGAGAGATCAACAAAAGGTTAATGATAATAGTTTAAGAAATTACTTAGAA
CTTTTTGGCCGTTTGTTATATGGATTCTTCGTTCCATCTTTCTGTGCCACTGAACATGCATCAT
GAAGAACTAGCAAACTGCAAAATGCACAGTCTTGTCTCATCTGGCCAAGTCCAAGCATTTATTC
ATCTATTATCAATTTTATATTGTTGTTTGGTTCAATTAATTCTTTTAGCTGGGTGGTGCTGTTT
TTTGCTTTCATCTTCTTGATATATTATGTTTCAAGTTTGATATAATTTTCCTGTGCCTTCTGTT
GTTCTTCTTCCCTTCTTTTTGGTGGGTAGATGTCTTGTGTCACAGTGCCATTTACTTGGCAGTC
TGTATGGATGCTTATGTAGATGCTGAAAATCACTTTTACTGTATTCTCCCCTTGGTATTTTTGT
AACTTATATGCTATTTGCTTTAGCCGTTTAGAGTGCTAATTTTTACGATATGTGTTGTCTTCCA
TCATATAGTCAAGTCAAGCTCTTGTGCATGGAAATACTACAGGTGAACTCCTTGCAGATCCATG
TTATGGATATGGATGCAATTTTTGAAGTCTTCGGACACTTAATTACTGAAGATGAAATGAATAT
TCTTTATGCTGAAGATATTGCTAATGATGTATAACATCTATGGAGAGGCCTTATTCTTAATGCA
ACTAGGTTTTGAACTAAATGATTCCTCAAGCGATGGGGGGGGGGTATTTTCTTTATTATGCTCT
TCTGCTGATTTTTGAAAATGTGGTCATGTTGGTGTTCTAATATGATGCAACCTTTTTCAACCAG
GAGACATTGATTTTGGAGTATGTTAATTTGATCATTGCAGATTTTCTCATGTTAAGACAAGACT
TAAGACATTGTTAATTATGATGAGAATCTAGACTAGCTACTAGAGTTTGAATTATTACTTTTCT
TGATGGTTTGAATTAGTTTGAGGCCTTTGATATTATGGATGTTAATTTGTACAGGTTTTGCCTT
GGTTCAAATTCTGAAATTTATGTAACTGTTCTTTAGAGGATTTTATTCCTCTTGCCTCCTGGTA
GTTCATGTATGTCGAAAAGGTTCTCTTTTATTCTCGGAAAAAATACTGAAAAATACAGAAGGCA
TGCTTTATCTGATTAGAAAAATATTCTTTCGACCAACTAGGTGGATGTATGCAGTCCTATCATT
CAAAGGGTGGACTTTAAAAATTGCATTCCTTTTAGCTTATCCTTGTTTGCAGTATATGTCACCC
AAATATTTATTGAAGATTGTCTGTTCCAATTTCAGCCTTTCATCTTTAGCTTTCTCTTCTAGCT
GTGTTTTAATTACGACAAACTTTTTTTTTGGTGTATGCTCACAAATGTTGTGTTTGCAGCATGC
ATATCGAGATGGTCAATTGGAGGAAATGGCTTTACGCCATCTTAGAGCTGAAGATGGGCGCACT
ATAATAACTAAGAATATTAGGTATTCTCTTTGCTTGTTTTGTACTTTTGCTAGTAGAACTAAAG
CAATATATTCTCATTTGTTAGTAGTTTTCTCTTTCCAAACTTGCTTACCATCTTGAGTGTGTTT
GCAGATTGTCAAACTTTCTTGGTGACTATGCACATTAATGTTCACAACATTTATTAGAGTGTGA
GTTCCTCCCATGCCTTTGCTTTTCTTCTTTTAACCTACTTCTGATATTTGATACAAGATGCTTA
GATTCATACTTGCAAAATCTCCAGTTTTTGCTCCAATATTGCACTATTTGTTTCCAAGATGCTT
TATCTTATCCAAAAAATACTTACCATTCATGCAGGATATCTAAATAATGCAAGGACCTATATGC
AGCTTTGATGAAAAAGTTTCTTGCTTCAGTTTCTACTGTTGCTCTCCATATCAAAAG
						
					

			
		

Sequences
Splice junction sequence	ACCATTCATGCAGGATATCTAAATAATGCAAGGACCTATATGCAGCTTTGATGAAAAAGTTTCT TGCTTCAGTTTCTACTGTTGCTCTCCATATCAAAAGagttctttgcaagttctttgctcatgga gcgtgcctaaaaggggagcattgtgagttttcccatcaatggaagcacccacctaacaatgtag gaagtttc
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	AGTTCTTTGCAAGTTCTTTGCTCATGGAGCGTGCCTAAAAGGGGAGCATTGTGAGTTTTCCCAT CAATGGAAGCACCCACCTAACAATGTAGGAAGTTTCCCTTCCCTTCGCCTTTTTGCATTTACTT GTTGATGATGCTTTTTGGTTACCTTATTCTTGTTTCTTGTGCATTCCAGATTTGCACGTACTAC CAGAAAGGAAACTGCTTTTATGGTAGTCGGTGCAGATATGAACATGTTAAGGCTTCTCAATCAG ATCCATCTGCTTCGTCTTCATCAACAGCACCTCAACAATCTACGTTATCAGATACTATGCCTTT AGCTCCTTCAAAAACTGCATTTGTTGGGTCGGTTGTATCTCCAGCTGCTTCTAGTAAGGTTCCT GGTTGCAGTAGAGCTTGCCTTGCTCCCTTCAAACAACCATGCGATTTGGAATCTGGGCCTCAAG ATCTATCAGATAATGGTGAATCTATAGAGCCTAGGAGAACTAATCCAGTTGAACGTTCTATCTG CTCATTTGCTGTAGCTGGAAATTGTCCCCGTGGAGAAAAATGTCCTCATATTCATGGAGACTTG TGTCCCACCTGTGAGAAACATTGTTTGCATCCTTTTAGACCTGAAGAAAGGGAGGAACATATAA AAATGTGTAAGAAAAAGAAAAAATACCTTGATGCATTGAAGCATAGTCAAGAAATAGAGTGTAG TGTGTGCTTGGATCGGGTTCTCTCGAAGCCCACAGCAGCTGAACGTAAGTTTGGGTTGCTTTCA GAATGTGATCATCCATTTTGCATATCTTGCATTAGAAATTGGCGTAGCAGTTCTCCTTCCTCTG GAATGGATGTCAATACTGCCTTGAGGGCTTGCCCAATCTGCCGCAAGCTATCATACTTTGTCAT TCCAAGTGTCATTTGGTATTGGACTCCAGAAGAAAAGCAGCGAATTGTAGATGGCTACAAGGCA AAATTGAGGTATTGTCATTGCGGTTCAATGCTTCTTACATTTCCTGCTTACATGCACTATTAGT TTAAGTTGTCAAAAGTATGTACATGTACATGTAGATATATATATATATATATATATTGATGGAT TATTTGGATGATTTGTAAAATCTATCTTATGATGGGGTGAATTAGATCATCTAATTTCCCCTCC ATACTTAAAGGAAGACAGAATCTGTTGGATTTTCAAAAAGAAATTACCGTGTAGAATGTTTTTA GGCTGTGATCTGACTTTCAAGCTTAGATACCTAAATCACATAAGAGAAGATGCTAAACCTAGGA TTTGTAGATTTGTATGGCAAATTTACTTTTCTAACTATTAAATCTCCATTTTTGTTCTTCACCC TTGCAGGACAATAAATTGCAAGCACTTCAACTTTGGAAACGGGAACTGTCCTTTTGGGAATAGT TGTTTTTACAAGGTAACAATTCGCTATTCATTCTTCAATTCATTGCAAAACCTATAAATTTCTT TTTCTAGTACTTTTTAATGTATGCCTTCTTGGTTCTTCTCAACTCTAAGCCGTTTAGATGTGAA TTTTATATTATAGTTTTCTGTTTCGCCATTTTCCCTGTCCCCTTCTTTCTGGTGATTCCTTGTC CTTTTCTCTTATTTTTGTCACTATGATTGCATAATGATTTAGCTGGTTCTTAGCCCAATCTCAA CCATGATGTCTAACAGTTTCACTTTTATTTGAAGAGATCGACTTGGGAAAATAAGTTTGGTTGT ACTTAAATTAACATTTGACAACCACTAGATTTTATCTTAATTTCCTAAAACAAAAGTGCCGTTA ATAGAGGGTAAGAGGAACAAAGATGAGCAGTGGGTGATATGGGTCTAGACAACAGTTAGGCAGA GATGATTAATTATATTCAAGATGTGGACTGAGTGAATAGAGGGAAAAGTGGTAATTCGACAGAC TTAATTCCGTACAAGGAGAGATCAACAAAAGGTTAATGATAATAGTTTAAGAAATTACTTAGAA CTTTTTGGCCGTTTGTTATATGGATTCTTCGTTCCATCTTTCTGTGCCACTGAACATGCATCAT GAAGAACTAGCAAACTGCAAAATGCACAGTCTTGTCTCATCTGGCCAAGTCCAAGCATTTATTC ATCTATTATCAATTTTATATTGTTGTTTGGTTCAATTAATTCTTTTAGCTGGGTGGTGCTGTTT TTTGCTTTCATCTTCTTGATATATTATGTTTCAAGTTTGATATAATTTTCCTGTGCCTTCTGTT GTTCTTCTTCCCTTCTTTTTGGTGGGTAGATGTCTTGTGTCACAGTGCCATTTACTTGGCAGTC TGTATGGATGCTTATGTAGATGCTGAAAATCACTTTTACTGTATTCTCCCCTTGGTATTTTTGT AACTTATATGCTATTTGCTTTAGCCGTTTAGAGTGCTAATTTTTACGATATGTGTTGTCTTCCA TCATATAGTCAAGTCAAGCTCTTGTGCATGGAAATACTACAGGTGAACTCCTTGCAGATCCATG TTATGGATATGGATGCAATTTTTGAAGTCTTCGGACACTTAATTACTGAAGATGAAATGAATAT TCTTTATGCTGAAGATATTGCTAATGATGTATAACATCTATGGAGAGGCCTTATTCTTAATGCA ACTAGGTTTTGAACTAAATGATTCCTCAAGCGATGGGGGGGGGGTATTTTCTTTATTATGCTCT TCTGCTGATTTTTGAAAATGTGGTCATGTTGGTGTTCTAATATGATGCAACCTTTTTCAACCAG GAGACATTGATTTTGGAGTATGTTAATTTGATCATTGCAGATTTTCTCATGTTAAGACAAGACT TAAGACATTGTTAATTATGATGAGAATCTAGACTAGCTACTAGAGTTTGAATTATTACTTTTCT TGATGGTTTGAATTAGTTTGAGGCCTTTGATATTATGGATGTTAATTTGTACAGGTTTTGCCTT GGTTCAAATTCTGAAATTTATGTAACTGTTCTTTAGAGGATTTTATTCCTCTTGCCTCCTGGTA GTTCATGTATGTCGAAAAGGTTCTCTTTTATTCTCGGAAAAAATACTGAAAAATACAGAAGGCA TGCTTTATCTGATTAGAAAAATATTCTTTCGACCAACTAGGTGGATGTATGCAGTCCTATCATT CAAAGGGTGGACTTTAAAAATTGCATTCCTTTTAGCTTATCCTTGTTTGCAGTATATGTCACCC AAATATTTATTGAAGATTGTCTGTTCCAATTTCAGCCTTTCATCTTTAGCTTTCTCTTCTAGCT GTGTTTTAATTACGACAAACTTTTTTTTTGGTGTATGCTCACAAATGTTGTGTTTGCAGCATGC ATATCGAGATGGTCAATTGGAGGAAATGGCTTTACGCCATCTTAGAGCTGAAGATGGGCGCACT ATAATAACTAAGAATATTAGGTATTCTCTTTGCTTGTTTTGTACTTTTGCTAGTAGAACTAAAG CAATATATTCTCATTTGTTAGTAGTTTTCTCTTTCCAAACTTGCTTACCATCTTGAGTGTGTTT GCAGATTGTCAAACTTTCTTGGTGACTATGCACATTAATGTTCACAACATTTATTAGAGTGTGA GTTCCTCCCATGCCTTTGCTTTTCTTCTTTTAACCTACTTCTGATATTTGATACAAGATGCTTA GATTCATACTTGCAAAATCTCCAGTTTTTGCTCCAATATTGCACTATTTGTTTCCAAGATGCTT TATCTTATCCAAAAAATACTTACCATTCATGCAGGATATCTAAATAATGCAAGGACCTATATGC AGCTTTGATGAAAAAGTTTCTTGCTTCAGTTTCTACTGTTGCTCTCCATATCAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.558292065

Conservation Information
Conserved circRNAs	NA
PMCS	0.558292065

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							47480434-47480205(+)
47480409-47476701(+)
						
						Potential amino acid sequence
						
							MKKFLASVSTVALHIKRVLCKFFAHGACLKGEHCEFSHQWKHPPNNICTYYQKGNCFYGSRCRY
EHVKASQSDPSASSSSTAPQQSTLSDTMPLAPSKTAFVGSVVSPAASSKVPGCSRACLAPFKQP
CDLESGPQDLSDNGESIEPRRTNPVERSICSFAVAGNCPRGEKCPHIHGDLCPTCEKHCLHPFR
PEEREEHIKMCKKKKKYLDALKHSQEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRN
WRSSSPSSGMDVNTALRACPICRKLSYFVIPSVIWYWTPEEKQRIVDGYKAKLRTINCKHFNFG
NGNCPFGNSCFYKHAYRDGQLEEMALRHLRAEDGRTIITKNIRLSNFLGDYAH*(+)
MQGPICSFDEKVSCFSFYCCSPYQKSSLQVLCSWSVPKRGAL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	47480434-47480205(+) 47480409-47476701(+)
Potential amino acid sequence	MKKFLASVSTVALHIKRVLCKFFAHGACLKGEHCEFSHQWKHPPNNICTYYQKGNCFYGSRCRY EHVKASQSDPSASSSSTAPQQSTLSDTMPLAPSKTAFVGSVVSPAASSKVPGCSRACLAPFKQP CDLESGPQDLSDNGESIEPRRTNPVERSICSFAVAGNCPRGEKCPHIHGDLCPTCEKHCLHPFR PEEREEHIKMCKKKKKYLDALKHSQEIECSVCLDRVLSKPTAAERKFGLLSECDHPFCISCIRN WRSSSPSSGMDVNTALRACPICRKLSYFVIPSVIWYWTPEEKQRIVDGYKAKLRTINCKHFNFG NGNCPFGNSCFYKHAYRDGQLEEMALRHLRAEDGRTIITKNIRLSNFLGDYAH(+) MQGPICSFDEKVSCFSFYCCSPYQKSSLQVLCSWSVPKRGAL(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.004G173300_circ_g.2

Address

Any questions?

Supported by