Plant Circular RNA Database

Detail information of orai.013G123300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.013G123300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001395
					
						Alias
						Chr13:31798610|31800597
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 31798610-31800597  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G123300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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  
						
							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.013G123300.2:6
Gorai.013G123300.1:6
Gorai.013G123300.3:6
Gorai.013G123300.4:6

General Information
CircRNA Name	orai.013G123300_circ_g.1
ID in PlantcircBase	gra_circ_001395
Alias	Chr13:31798610\|31800597
Organism	Gossypium raimondii
Position	chrChr13: 31798610-31800597 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.013G123300
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	4
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	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.013G123300.2:6 Gorai.013G123300.1:6 Gorai.013G123300.3:6 Gorai.013G123300.4:6

			
						 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  
						
							AGATCAAGCTGCCTTCATACTGAGCATTCCGAAGCGGAAAACAATGGATGAAACTCAGGAAACT
CTACGTACATCTGCCTTTCCAAGCACCCATGTAAAGggggataacaagagttttatggtttgca
agaaaaagatggccacttctccagagttgatgtgttgcttttgtcctgccccttttaagcagtt
cctcgaag

									
								

					

						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: 963
Transcript exons: 31798610-31798828,31798918-31799048,31799629-31799803,31
799894-31799984,31800145-31800302,31800409-31800597
GGGGATAACAAGAGTTTTATGGTTTGCAAGAAAAAGATGGCCACTTCTCCAGAGTTGATGTGTT
GCTTTTGTCCTGCCCCTTTTAAGCAGTTCCTCGAAGTTGTTACAAATATGAAGTTTGATGAGGA
GCCAAATTATGCCAAGCTCATATCCATATTTGAAAGCCTAATTGAACCATGCACGGCACTGAGA
CCAATTAGAATTGATGGAGCTCTTAAGGTTGGGCAAAAACGGGGAAGATTAGTGATTAATTTGG
AAGACGATGATCAACCTAAGAAAAAAGTACGTCTTGGTAGTCCTGCTACTCAGTGGATTTCTGC
TTACAATGCACGTCGTCCTATGAAGCAGAGATATCACTATAATGTAGCGGATTCGAGGTTGCGG
CAGCATGTAGATAAGGGTAATGAAGATGGATTGTTTATTAGTTGTGTGGCTTCAGCAGCTAATC
TCTGGGCCCTGATCATGGATGCTGGAACCAGTTTCTCTTCCCAGGTTTATGAATTGTCGACCGT
CTTTCTACACAAGGATTGGATTATGGAGCAGTGGGAAAAGAACTACTATATTAGTTCGATAGCT
GGAGCAAATAACGGAAGTTCCTTGGTTGTTATGTCAAAAGGAACTCCTTACACCCAGCAGTCAT
ACAAAGTGAGTGAATCTTTTCCTTTCAAATGGATAAACAAGAAGTGGAAAGAAGGCTTTCATGT
AACATCAATGACAACTTCCGGGAGTCGCTGGGGTGTGGTAATGTCTAGGAACTCCGGATTCTCC
GATCAGGTTGTGGAGCTTGACTTTCTATATCCAAGTGAAGGGATACATCGGCGATGGGAGAATG
GTTATAGAATAACATCTATGGCTGCGACTGGAGATCAAGCTGCCTTCATACTGAGCATTCCGAA
GCGGAAAACAATGGATGAAACTCAGGAAACTCTACGTACATCTGCCTTTCCAAGCACCCATGTA
AAG
						
					

						Genomic sequence
						
							GGGGATAACAAGAGTTTTATGGTTTGCAAGAAAAAGATGGCCACTTCTCCAGAGTTGATGTGTT
GCTTTTGTCCTGCCCCTTTTAAGCAGTTCCTCGAAGTTGTTACAAATATGAAGTTTGATGAGGA
GCCAAATTATGCCAAGCTCATATCCATATTTGAAAGCCTAATTGAACCATGCACGGCACTGAGA
CCAATTAGAATTGATGGAGCTCTTAAGGTGGTTGTTACGTCTTTTCCCCCAATTAAATTGGATT
AGATAGGATGGTCACTCAAGCAACCTTTCTCCATTTCCTTTTAAATAAATAGGTTGGGCAAAAA
CGGGGAAGATTAGTGATTAATTTGGAAGACGATGATCAACCTAAGAAAAAAGTACGTCTTGGTA
GTCCTGCTACTCAGTGGATTTCTGCTTACAATGCACGTCGTCCTATGAAGCAGAGGTAAAGTTG
CATTTTCTTGTTAAATATAATATTCATTTATACTGCTTGTATCTTCTTATGTTACTCCAGCCCT
TCATTTGTTTGAAGTACCCATGTCTGACACGTATCCAGACAGATTATTGGGATATGACAGATAT
ATGGAGAACTTAGAAAAAATTGAAAGTACTTGTGTCGGAAATGCCCATACCTCACACTTATGCC
CTAGTCCAAGTAACATAGGTATCTTGTGCTGCTCAAACATTTTGTTATATCTCCACTTCTGGGA
TTTTGAATGTAAGTTTAAGCAAGTTGTATTCATTTTTGGTGTCTCATATGATGATTAAACGTAT
ATAGGGGCTGGCAAAACTTAAAAAGTAAATAAGAAAGGACCTTCATATTCTTAGTGACTGGTTG
TTTGCAGTTGAATGTGGTTTATTGAAATTAGATTGGGGCCCTTTCTGATGTTTATTTTTCTATG
CCTGCTCTAAGTGAATTATGAGATATTGGTTCAAAATTTGCTTTGCATAGATTTTGTTCAACTT
AAGGTAATTCTGAAACGGTGTTTGTTCATCTTGCATATAACTTTTTGTCAACCTTGTAGATATC
ACTATAATGTAGCGGATTCGAGGTTGCGGCAGCATGTAGATAAGGGTAATGAAGATGGATTGTT
TATTAGTTGTGTGGCTTCAGCAGCTAATCTCTGGGCCCTGATCATGGATGCTGGAACCAGTTTC
TCTTCCCAGGTTTATGAATTGTCGACCGTCTTTCTACACAAGGTAATTAATCTTAAGCACTGGT
TCGTTTCATTTTCCGTTTTGATTTACATGCATATTTTACTTACTTTAATATCTATCGTATTTCA
TTAGGATTGGATTATGGAGCAGTGGGAAAAGAACTACTATATTAGTTCGATAGCTGGAGCAAAT
AACGGAAGTTCCTTGGTTGTTATGTCAAAAGGTTGGTAAATTTCCTACTAAATAAATTTCCTTT
TTGATGCCTTTGAAACGAGATGAAATTGCATTTTGAGCTATGTTACTTGTATCTGACACCCATG
CCTGAGTCTGAGTAATATAGACCCTAATTACCAAGCTGTTCTTGAAATTCCACAACTTTGTAGG
AACTCCTTACACCCAGCAGTCATACAAAGTGAGTGAATCTTTTCCTTTCAAATGGATAAACAAG
AAGTGGAAAGAAGGCTTTCATGTAACATCAATGACAACTTCCGGGAGTCGCTGGGGTGTGGTAA
TGTCTAGGAACTCCGGATTCTCCGATCAGGTATTCCTTTTTTTCTATCTTTTACATGCATCTTT
AGCACTACACTGCCCTCCATTTCAGAAGTAGCTGATTATACTTCATTTTATACTTATTTTAATG
ATTCAAGGTTGTGGAGCTTGACTTTCTATATCCAAGTGAAGGGATACATCGGCGATGGGAGAAT
GGTTATAGAATAACATCTATGGCTGCGACTGGAGATCAAGCTGCCTTCATACTGAGCATTCCGA
AGCGGAAAACAATGGATGAAACTCAGGAAACTCTACGTACATCTGCCTTTCCAAGCACCCATGT
AAAG
						
					

			
		

Sequences
Splice junction sequence	AGATCAAGCTGCCTTCATACTGAGCATTCCGAAGCGGAAAACAATGGATGAAACTCAGGAAACT CTACGTACATCTGCCTTTCCAAGCACCCATGTAAAGggggataacaagagttttatggtttgca agaaaaagatggccacttctccagagttgatgtgttgcttttgtcctgccccttttaagcagtt cctcgaag
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: 963 Transcript exons: 31798610-31798828,31798918-31799048,31799629-31799803,31 799894-31799984,31800145-31800302,31800409-31800597 GGGGATAACAAGAGTTTTATGGTTTGCAAGAAAAAGATGGCCACTTCTCCAGAGTTGATGTGTT GCTTTTGTCCTGCCCCTTTTAAGCAGTTCCTCGAAGTTGTTACAAATATGAAGTTTGATGAGGA GCCAAATTATGCCAAGCTCATATCCATATTTGAAAGCCTAATTGAACCATGCACGGCACTGAGA CCAATTAGAATTGATGGAGCTCTTAAGGTTGGGCAAAAACGGGGAAGATTAGTGATTAATTTGG AAGACGATGATCAACCTAAGAAAAAAGTACGTCTTGGTAGTCCTGCTACTCAGTGGATTTCTGC TTACAATGCACGTCGTCCTATGAAGCAGAGATATCACTATAATGTAGCGGATTCGAGGTTGCGG CAGCATGTAGATAAGGGTAATGAAGATGGATTGTTTATTAGTTGTGTGGCTTCAGCAGCTAATC TCTGGGCCCTGATCATGGATGCTGGAACCAGTTTCTCTTCCCAGGTTTATGAATTGTCGACCGT CTTTCTACACAAGGATTGGATTATGGAGCAGTGGGAAAAGAACTACTATATTAGTTCGATAGCT GGAGCAAATAACGGAAGTTCCTTGGTTGTTATGTCAAAAGGAACTCCTTACACCCAGCAGTCAT ACAAAGTGAGTGAATCTTTTCCTTTCAAATGGATAAACAAGAAGTGGAAAGAAGGCTTTCATGT AACATCAATGACAACTTCCGGGAGTCGCTGGGGTGTGGTAATGTCTAGGAACTCCGGATTCTCC GATCAGGTTGTGGAGCTTGACTTTCTATATCCAAGTGAAGGGATACATCGGCGATGGGAGAATG GTTATAGAATAACATCTATGGCTGCGACTGGAGATCAAGCTGCCTTCATACTGAGCATTCCGAA GCGGAAAACAATGGATGAAACTCAGGAAACTCTACGTACATCTGCCTTTCCAAGCACCCATGTA AAG
Genomic sequence	GGGGATAACAAGAGTTTTATGGTTTGCAAGAAAAAGATGGCCACTTCTCCAGAGTTGATGTGTT GCTTTTGTCCTGCCCCTTTTAAGCAGTTCCTCGAAGTTGTTACAAATATGAAGTTTGATGAGGA GCCAAATTATGCCAAGCTCATATCCATATTTGAAAGCCTAATTGAACCATGCACGGCACTGAGA CCAATTAGAATTGATGGAGCTCTTAAGGTGGTTGTTACGTCTTTTCCCCCAATTAAATTGGATT AGATAGGATGGTCACTCAAGCAACCTTTCTCCATTTCCTTTTAAATAAATAGGTTGGGCAAAAA CGGGGAAGATTAGTGATTAATTTGGAAGACGATGATCAACCTAAGAAAAAAGTACGTCTTGGTA GTCCTGCTACTCAGTGGATTTCTGCTTACAATGCACGTCGTCCTATGAAGCAGAGGTAAAGTTG CATTTTCTTGTTAAATATAATATTCATTTATACTGCTTGTATCTTCTTATGTTACTCCAGCCCT TCATTTGTTTGAAGTACCCATGTCTGACACGTATCCAGACAGATTATTGGGATATGACAGATAT ATGGAGAACTTAGAAAAAATTGAAAGTACTTGTGTCGGAAATGCCCATACCTCACACTTATGCC CTAGTCCAAGTAACATAGGTATCTTGTGCTGCTCAAACATTTTGTTATATCTCCACTTCTGGGA TTTTGAATGTAAGTTTAAGCAAGTTGTATTCATTTTTGGTGTCTCATATGATGATTAAACGTAT ATAGGGGCTGGCAAAACTTAAAAAGTAAATAAGAAAGGACCTTCATATTCTTAGTGACTGGTTG TTTGCAGTTGAATGTGGTTTATTGAAATTAGATTGGGGCCCTTTCTGATGTTTATTTTTCTATG CCTGCTCTAAGTGAATTATGAGATATTGGTTCAAAATTTGCTTTGCATAGATTTTGTTCAACTT AAGGTAATTCTGAAACGGTGTTTGTTCATCTTGCATATAACTTTTTGTCAACCTTGTAGATATC ACTATAATGTAGCGGATTCGAGGTTGCGGCAGCATGTAGATAAGGGTAATGAAGATGGATTGTT TATTAGTTGTGTGGCTTCAGCAGCTAATCTCTGGGCCCTGATCATGGATGCTGGAACCAGTTTC TCTTCCCAGGTTTATGAATTGTCGACCGTCTTTCTACACAAGGTAATTAATCTTAAGCACTGGT TCGTTTCATTTTCCGTTTTGATTTACATGCATATTTTACTTACTTTAATATCTATCGTATTTCA TTAGGATTGGATTATGGAGCAGTGGGAAAAGAACTACTATATTAGTTCGATAGCTGGAGCAAAT AACGGAAGTTCCTTGGTTGTTATGTCAAAAGGTTGGTAAATTTCCTACTAAATAAATTTCCTTT TTGATGCCTTTGAAACGAGATGAAATTGCATTTTGAGCTATGTTACTTGTATCTGACACCCATG CCTGAGTCTGAGTAATATAGACCCTAATTACCAAGCTGTTCTTGAAATTCCACAACTTTGTAGG AACTCCTTACACCCAGCAGTCATACAAAGTGAGTGAATCTTTTCCTTTCAAATGGATAAACAAG AAGTGGAAAGAAGGCTTTCATGTAACATCAATGACAACTTCCGGGAGTCGCTGGGGTGTGGTAA TGTCTAGGAACTCCGGATTCTCCGATCAGGTATTCCTTTTTTTCTATCTTTTACATGCATCTTT AGCACTACACTGCCCTCCATTTCAGAAGTAGCTGATTATACTTCATTTTATACTTATTTTAATG ATTCAAGGTTGTGGAGCTTGACTTTCTATATCCAAGTGAAGGGATACATCGGCGATGGGAGAAT GGTTATAGAATAACATCTATGGCTGCGACTGGAGATCAAGCTGCCTTCATACTGAGCATTCCGA AGCGGAAAACAATGGATGAAACTCAGGAAACTCTACGTACATCTGCCTTTCCAAGCACCCATGT AAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.828038083

Conservation Information
Conserved circRNAs	NA
PMCS	0.828038083

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31798628-31800594(+)
						
						Potential amino acid sequence
						
							MVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRIDG
ALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVDKG
NEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANNGS
SLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVVEL
DFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDNKS
FMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRID
GALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVDK
GNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANNG
SSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVVE
LDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDNK
SFMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRI
DGALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVD
KGNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANN
GSSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVV
ELDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDN
KSFMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIR
IDGALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHV
DKGNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGAN
NGSSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQV
VELDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVK(+
)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31798628-31800594(+)
Potential amino acid sequence	MVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRIDG ALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVDKG NEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANNGS SLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVVEL DFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDNKS FMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRID GALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVDK GNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANNG SSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVVE LDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDNK SFMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIRI DGALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHVD KGNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGANN GSSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQVV ELDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVKGDN KSFMVCKKKMATSPELMCCFCPAPFKQFLEVVTNMKFDEEPNYAKLISIFESLIEPCTALRPIR IDGALKVGQKRGRLVINLEDDDQPKKKVRLGSPATQWISAYNARRPMKQRYHYNVADSRLRQHV DKGNEDGLFISCVASAANLWALIMDAGTSFSSQVYELSTVFLHKDWIMEQWEKNYYISSIAGAN NGSSLVVMSKGTPYTQQSYKVSESFPFKWINKKWKEGFHVTSMTTSGSRWGVVMSRNSGFSDQV VELDFLYPSEGIHRRWENGYRITSMAATGDQAAFILSIPKRKTMDETQETLRTSAFPSTHVK(+ )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G123300_circ_g.1

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