Plant Circular RNA Database

Detail information of AT1G59820_circ_g.10

			
						 General Information
					
						CircRNA Name
						AT1G59820_circ_g.10
					
						ID in PlantcircBase
						ath_circ_008048
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 22016553-22018687  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT1G59820						
					
						Parent gene annotation
						
							Phospholipid-transporting ATPase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G59820_circ_g.1 AT1G59820_circ_g.2 AT1G59820_circ_g.3 AT1G59820_circ_g.4 AT1G59820_circ_g.5 AT1G59820_circ_g.6 AT1G59820_circ_g.7 AT1G59820_circ_g.8 AT1G59820_circ_g.9 AT1G59820_circ_g.11 AT1G59820_circ_g.12 						
					
						Support reads
						2
					
						Tissues
						whole_plant
					
						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
						AT1G59820.1:8

General Information
CircRNA Name	AT1G59820_circ_g.10
ID in PlantcircBase	ath_circ_008048
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 22016553-22018687 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT1G59820
Parent gene annotation	Phospholipid-transporting ATPase
Parent gene strand	+
Alternative splicing	AT1G59820_circ_g.1 AT1G59820_circ_g.2 AT1G59820_circ_g.3 AT1G59820_circ_g.4 AT1G59820_circ_g.5 AT1G59820_circ_g.6 AT1G59820_circ_g.7 AT1G59820_circ_g.8 AT1G59820_circ_g.9 AT1G59820_circ_g.11 AT1G59820_circ_g.12
Support reads	2
Tissues	whole_plant
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	AT1G59820.1:8

			
						 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  
						
							GCAAGCTGTGATGGCTAGTGATTTTGCCATTGCTCAGTTCAGATTTCTTACAGATTTACTTCTT
GTCCATGGACGGTGGTCATATCTTAGAATCTGCAAGgaactgtttagatgcctggccatctgtc
acactgtccttcctgaaggtgatgagtcccctgagaagattgtttatcaagctgcatctccaga
tgaagctg

									
								

					

						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
						
							GAACTGTTTAGATGCCTGGCCATCTGTCACACTGTCCTTCCTGAAGGTGATGAGTCCCCTGAGA
AGATTGTTTATCAAGCTGCATCTCCAGATGAAGCTGCCTTAGTTACTGCTGCCAAGAATTTTGG
ATTCTTCTTTTATAGGTAATTCTCATTACATTTTAAATTCCAAAGATTTGAAATTGCTGGCATT
AAATCTGACAAGATAAATTTACAATTTGTTGACTTGTCCCATGATTCCTTGTTCTAATTTATAG
AGTGTTTTCTATAAGTGCTTTTGTTTCTCAAGTCTCTGGTAGTTTGTTTGACACTACTTTCATG
TATTTTCAGGCGTACTCCAACTATGGTGTATGTTCGCGAGTCTCATGTGGAGAAGATGGGAAAG
ATTCAAGACGTGGCCTATGAGATCCTAAACGTTCTCGAGTTCAACAGGTCTATATGACAGTGAA
TTGTTTGTTTATTTTCTTTACGTCATGATTTAAGCATACTAATTATATCTTACACAATGCACAA
CAGTACTAGGAAGCGCCAGTCTGTTGTATGTCGTTTCCCAGATGGAAGGCTTGTACTCTACTGT
AAGGTAATAGTTCTTTACATACTTGGTTCTATGTGTACTTCTGGATCAGTTTTTGATCATTGCT
TGGAACATTGTCCACAGGGCGCTGATAATGTTATCTTTGAGAGATTGGCTAATGGTATGGACGA
TGTTAGGAAAGTAACAAGAGAACATTTGGAACATTTTGGGTCTTCTGGATTGCGTACCCTTTGC
CTAGCCTATAAAGATTTAAATCCTGAAACCTATGATAGTTGGAATGAAAAGTTCATCCAAGCCA
AATCTGCATTACGAGACCGTGAGAAGAAGTTAGATGAGGTATACTACAATTTCTTACCCATATG
TATTCTCTTGTTTGTAAACAGGAGTGAAAATGATTTTATGATTATGTCCTTAAGTAATGTGAAT
GATTGTATCAATGAATACATTTTTTTTAGTCGCCCAGGAAATAACTTATAATTTTTGATGAATG
TGTCGTGTCTTGATCTATGAAGGTGGCAGAACTCATCGAGAAGGATCTTATCCTCATCGGATCA
ACTGCGATAGAAGACAAACTTCAGGAAGGGGTGCCTACCTGCATAGAAACATTATCAAGAGCTG
GAATTAAGATCTGGGTGTTAACAGGGGACAAAATGGAAACGGCTATTAATATTGCATATGGTAT
GGTGTGTCACAAACTTGTTCTTTGAGATCTTATTTCTTCTATCTCCCACTTTAATATCTGCTCT
TTGATTCTGTTTTGCTACAGCATGCAACTTGATCAACAATGAAATGAAACAATTTGTCATTAGT
TCTGAAACCGATGCAATCAGAGAAGCTGAAGAAAGGGTAAGTGTTTTACTTTAGTTTTTCCTTC
TTATGTAGGATTTTCATGAAAGACAACCATTGTAGTTAATTTTTACTAATAAAAGCTTTTATTG
TAGGGTGATCAAGTTGAGATTGCTCGTGTTATCAAAGAAGAAGTAAAGAGGGAGCTGAAAAAGA
GTCTTGAGGAAGCTCAACACTCTTTGCATACCGTAGCTGGACCAAAATTGTCTCTCGTTATTGA
TGGCAAGTGTTTAATGTATGCATTAGACCCGAGTTTACGCGTGATGCTGCTCAGCTTGAGCTTG
AACTGTACTTCAGTTGTATGCTGTCGTGTATCTCCGTTACAGAAAGCACAGGTAATTTCAAATT
AAGTTCGTCTAGCCAATACCTTTTAAAGGGGTCTATATATTATTGTTCTAGGGCTTTTGTTGCC
AAAATTGGTAATCACATATTTTCTTGGGTTTAAATTATGGCACTCATATTCAATGAGTAACTTG
GTTCTATGGGTTCTTTGAACCGGCTTCTTAATTTTAATATATGTGATCTAATTTCAGGTGACAA
GCTTGGTGAGAAAAGGGGCACAAAAGATTACTCTTAGTATTGGTGATGGGGCCAATGATGTTAG
CATGATTCAAGCTGCTCATGTTGGTATAGGAATAAGTGGGATGGAGGGAATGCAAGCTGTGATG
GCTAGTGATTTTGCCATTGCTCAGTTCAGATTTCTTACAGATTTACTTCTTGTCCATGGACGGT
GGTCATATCTTAGAATCTGCAAG
						
					

			
		

Sequences
Splice junction sequence	GCAAGCTGTGATGGCTAGTGATTTTGCCATTGCTCAGTTCAGATTTCTTACAGATTTACTTCTT GTCCATGGACGGTGGTCATATCTTAGAATCTGCAAGgaactgtttagatgcctggccatctgtc acactgtccttcctgaaggtgatgagtcccctgagaagattgtttatcaagctgcatctccaga tgaagctg
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	GAACTGTTTAGATGCCTGGCCATCTGTCACACTGTCCTTCCTGAAGGTGATGAGTCCCCTGAGA AGATTGTTTATCAAGCTGCATCTCCAGATGAAGCTGCCTTAGTTACTGCTGCCAAGAATTTTGG ATTCTTCTTTTATAGGTAATTCTCATTACATTTTAAATTCCAAAGATTTGAAATTGCTGGCATT AAATCTGACAAGATAAATTTACAATTTGTTGACTTGTCCCATGATTCCTTGTTCTAATTTATAG AGTGTTTTCTATAAGTGCTTTTGTTTCTCAAGTCTCTGGTAGTTTGTTTGACACTACTTTCATG TATTTTCAGGCGTACTCCAACTATGGTGTATGTTCGCGAGTCTCATGTGGAGAAGATGGGAAAG ATTCAAGACGTGGCCTATGAGATCCTAAACGTTCTCGAGTTCAACAGGTCTATATGACAGTGAA TTGTTTGTTTATTTTCTTTACGTCATGATTTAAGCATACTAATTATATCTTACACAATGCACAA CAGTACTAGGAAGCGCCAGTCTGTTGTATGTCGTTTCCCAGATGGAAGGCTTGTACTCTACTGT AAGGTAATAGTTCTTTACATACTTGGTTCTATGTGTACTTCTGGATCAGTTTTTGATCATTGCT TGGAACATTGTCCACAGGGCGCTGATAATGTTATCTTTGAGAGATTGGCTAATGGTATGGACGA TGTTAGGAAAGTAACAAGAGAACATTTGGAACATTTTGGGTCTTCTGGATTGCGTACCCTTTGC CTAGCCTATAAAGATTTAAATCCTGAAACCTATGATAGTTGGAATGAAAAGTTCATCCAAGCCA AATCTGCATTACGAGACCGTGAGAAGAAGTTAGATGAGGTATACTACAATTTCTTACCCATATG TATTCTCTTGTTTGTAAACAGGAGTGAAAATGATTTTATGATTATGTCCTTAAGTAATGTGAAT GATTGTATCAATGAATACATTTTTTTTAGTCGCCCAGGAAATAACTTATAATTTTTGATGAATG TGTCGTGTCTTGATCTATGAAGGTGGCAGAACTCATCGAGAAGGATCTTATCCTCATCGGATCA ACTGCGATAGAAGACAAACTTCAGGAAGGGGTGCCTACCTGCATAGAAACATTATCAAGAGCTG GAATTAAGATCTGGGTGTTAACAGGGGACAAAATGGAAACGGCTATTAATATTGCATATGGTAT GGTGTGTCACAAACTTGTTCTTTGAGATCTTATTTCTTCTATCTCCCACTTTAATATCTGCTCT TTGATTCTGTTTTGCTACAGCATGCAACTTGATCAACAATGAAATGAAACAATTTGTCATTAGT TCTGAAACCGATGCAATCAGAGAAGCTGAAGAAAGGGTAAGTGTTTTACTTTAGTTTTTCCTTC TTATGTAGGATTTTCATGAAAGACAACCATTGTAGTTAATTTTTACTAATAAAAGCTTTTATTG TAGGGTGATCAAGTTGAGATTGCTCGTGTTATCAAAGAAGAAGTAAAGAGGGAGCTGAAAAAGA GTCTTGAGGAAGCTCAACACTCTTTGCATACCGTAGCTGGACCAAAATTGTCTCTCGTTATTGA TGGCAAGTGTTTAATGTATGCATTAGACCCGAGTTTACGCGTGATGCTGCTCAGCTTGAGCTTG AACTGTACTTCAGTTGTATGCTGTCGTGTATCTCCGTTACAGAAAGCACAGGTAATTTCAAATT AAGTTCGTCTAGCCAATACCTTTTAAAGGGGTCTATATATTATTGTTCTAGGGCTTTTGTTGCC AAAATTGGTAATCACATATTTTCTTGGGTTTAAATTATGGCACTCATATTCAATGAGTAACTTG GTTCTATGGGTTCTTTGAACCGGCTTCTTAATTTTAATATATGTGATCTAATTTCAGGTGACAA GCTTGGTGAGAAAAGGGGCACAAAAGATTACTCTTAGTATTGGTGATGGGGCCAATGATGTTAG CATGATTCAAGCTGCTCATGTTGGTATAGGAATAAGTGGGATGGAGGGAATGCAAGCTGTGATG GCTAGTGATTTTGCCATTGCTCAGTTCAGATTTCTTACAGATTTACTTCTTGTCCATGGACGGT GGTCATATCTTAGAATCTGCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.226523236

Conservation Information
Conserved circRNAs	NA
PMCS	0.226523236

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							22016895-22018684(+)
						
					

						Potential amino acid sequence
						
							MVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYCKGADNVIFERLANG
MDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALRDREKKLDEVAELIE
KDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYACNLINNEMKQFVIS
SETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLSLVIDGKCLMYALDP
SLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGANDVSMIQAAHVGIGIS
GMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICKELFRCLAICHTVLPEGDESPEKIVYQ
AASPDEAALVTAAKNFGFFFYRRTPTMVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVV
CRFPDGRLVLYCKGADNVIFERLANGMDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSW
NEKFIQAKSALRDREKKLDEVAELIEKDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTG
DKMETAINIAYACNLINNEMKQFVISSETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQ
HSLHTVAGPKLSLVIDGKCLMYALDPSLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQ
KITLSIGDGANDVSMIQAAHVGIGISGMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICK
ELFRCLAICHTVLPEGDESPEKIVYQAASPDEAALVTAAKNFGFFFYRRTPTMVYVRESHVEKM
GKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYCKGADNVIFERLANGMDDVRKVTREHL
EHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALRDREKKLDEVAELIEKDLILIGSTAIE
DKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYACNLINNEMKQFVISSETDAIREAEER
GDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLSLVIDGKCLMYALDPSLRVMLLSLSLN
CTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGANDVSMIQAAHVGIGISGMEGMQAVMASD
FAIAQFRFLTDLLLVHGRWSYLRICKELFRCLAICHTVLPEGDESPEKIVYQAASPDEAALVTA
AKNFGFFFYRRTPTMVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYC
KGADNVIFERLANGMDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALR
DREKKLDEVAELIEKDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYA
CNLINNEMKQFVISSETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLS
LVIDGKCLMYALDPSLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGAND
VSMIQAAHVGIGISGMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICK(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	22016895-22018684(+)
Potential amino acid sequence	MVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYCKGADNVIFERLANG MDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALRDREKKLDEVAELIE KDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYACNLINNEMKQFVIS SETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLSLVIDGKCLMYALDP SLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGANDVSMIQAAHVGIGIS GMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICKELFRCLAICHTVLPEGDESPEKIVYQ AASPDEAALVTAAKNFGFFFYRRTPTMVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVV CRFPDGRLVLYCKGADNVIFERLANGMDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSW NEKFIQAKSALRDREKKLDEVAELIEKDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTG DKMETAINIAYACNLINNEMKQFVISSETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQ HSLHTVAGPKLSLVIDGKCLMYALDPSLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQ KITLSIGDGANDVSMIQAAHVGIGISGMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICK ELFRCLAICHTVLPEGDESPEKIVYQAASPDEAALVTAAKNFGFFFYRRTPTMVYVRESHVEKM GKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYCKGADNVIFERLANGMDDVRKVTREHL EHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALRDREKKLDEVAELIEKDLILIGSTAIE DKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYACNLINNEMKQFVISSETDAIREAEER GDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLSLVIDGKCLMYALDPSLRVMLLSLSLN CTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGANDVSMIQAAHVGIGISGMEGMQAVMASD FAIAQFRFLTDLLLVHGRWSYLRICKELFRCLAICHTVLPEGDESPEKIVYQAASPDEAALVTA AKNFGFFFYRRTPTMVYVRESHVEKMGKIQDVAYEILNVLEFNSTRKRQSVVCRFPDGRLVLYC KGADNVIFERLANGMDDVRKVTREHLEHFGSSGLRTLCLAYKDLNPETYDSWNEKFIQAKSALR DREKKLDEVAELIEKDLILIGSTAIEDKLQEGVPTCIETLSRAGIKIWVLTGDKMETAINIAYA CNLINNEMKQFVISSETDAIREAEERGDQVEIARVIKEEVKRELKKSLEEAQHSLHTVAGPKLS LVIDGKCLMYALDPSLRVMLLSLSLNCTSVVCCRVSPLQKAQVTSLVRKGAQKITLSIGDGAND VSMIQAAHVGIGISGMEGMQAVMASDFAIAQFRFLTDLLLVHGRWSYLRICK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G59820_circ_g.10

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