Plant Circular RNA Database

Detail information of AT1G16800_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G16800_circ_g.1
					
						ID in PlantcircBase
						ath_circ_002968
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 5749275-5751226  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT1G16800						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						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  
						
							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
						AT1G16800.1:3
AT1G16800.2:3
AT1G16800.3:3

General Information
CircRNA Name	AT1G16800_circ_g.1
ID in PlantcircBase	ath_circ_002968
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 5749275-5751226 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT1G16800
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	NA
Support reads	1
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	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	AT1G16800.1:3 AT1G16800.2:3 AT1G16800.3:3

			
						 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  
						
							CGTCTGTAATGGCCACCTCCTCTTCCTTCAGCAACTTGAACAATAAAAAGAAAAAATGGTGCAG
GATCTGAAAGCTTTGAAGGACAGAGCTCAAATGGACctttcccatcatatttacaccgacattg
ctgttttctggatgctctttcgtgaacaaaaccaagtcattctcagagaaacttttcgagttgg
acccatca

									
								

					

						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
						
							CTTTCCCATCATATTTACACCGACATTGCTGTTTTCTGGATGCTCTTTCGTGAACAAAACCAAG
TCATTCTCAGAGAAACTTTTCGAGTTGGACCCATCATTTTCGTCTTGCATAAAACGAACAAAAT
GAAAATCGTCAACCCTTTCAATCGATAACACTGAAATAACACCATAATATATCTCCTCCAGTGA
TGATATCTCCTGGAAGGAACTTTGCAGCTGTGCTTTAAACTCCTCCAAAACCAAGGGCTGAAAA
ATCTGAATATATTGCTCAGGTGAACCAAAGCGCACAGGAACTTCCCTAAATTTTCCAACATTCT
GACTCTCATCTTTCTTTGTTGATGCCAATCCCACTATCGCATAGTAGTCCATTTGCAAAATCTT
TCTAAACCAATCTTCAAGCTTTGGTGGTCTGAATCTTTTGAATCCAGCTTCTTGTCTCTGCCAA
CGATCGGATTTCTTGTTGACAGGTGCACAAAGTTGAATGACTTGTCTTTTGGGAACAATGGGCC
CTGATTTTGCCAGGGGTAATGACTGCCGTTTCAGAGATTTAAGAGCCAAGTCAAGTGGATCAAC
CTCCGTCTCATTTACCACCTTTCTCAAATCCATGCCTTTGGCGTTGGAAATCGCAGATTTCTGA
GCCTCTTTTGAAGTACCACGAGGGCCGAGTTCATCAGTAGCCTTCTTTAAGTTGGGTCTGATTC
CAGATGAAACAGGATCTTCCACATTCTGTCTTTTTTCCGCTTCCCTACTCATACCAGCAGCCTT
GCTTGGTTCAGCGTTTGTTGTGGGAAGATCCCTAACAATATTGCTGGAGCTAACTGTAACATCT
CTCTCTGAAAGAACTAACGCTGAAAGCTTTGAAGCATCAATACTAGAAGTACTCTTCTTCAGAG
AGGAGATCTGGGAGATGTTTTTGATAGGTAGAAGAGTTTTATTGATGTCAGGTTGATGAGACTT
ATGCAGACTAGGTAAATTTTTCAACGATTCCTTTTCTGTCTCATCCACTGTTAGATCCATCATA
TTATCTTGTAATTTGCCAACAACATCAACAGGTTTGAGAATCTGGTACTCATTTGCCTTGGGAA
CAAGGCGTGAGATTTGTTCTGCTAATTGCTCGATGTCAACATCATCTGAATTAAGAAGAGTCAG
AGCATTGTCAATTGTATCACCTGGGAAAAATAGTTCTAAAATGCCAGTTAGAAACTATTAACAA
GCAGGAAACAACTTACCAGAGGATAGAACATGTCTGATAGCTTGGACTGCCGAAGAACAAGCGT
CACTGTTTGATCCTTGTAAGATGTCTAGCAAAGCCACTAATGCTCGTTTCCAATACGCAACAAC
AACCTTAAGTTGTGACCTTCCCCAATCAATGAGATCAGGAAGCCATTTAAGATCAGACGCATCT
TTCAAAGTTCCTCTAGTATCACAGGACTCTTCACGGCTTACTCTAAGTTTTCCCAGAACGACAG
GAAGAATCTCAAGCAAACGTACACATGTCATCTGCCAAATTAGATAAATGGAACTTTAGCAATA
AACCAGACTCGGCTCATATGAAGCAGATACAGCTCAAAGATGACAACCGAAGAGGACAGTAGAA
TGAAGCAGAAGCAATAAAGGTAAAACCAAGGTTCACCACGACGACTTTCAAATAATACCTGGCA
AAGACTTTGATGGATGAAAGTCTTTCCCTCAACTAGGCACTTCCTTATTATGCCCCATGCAACT
TCTGCTAGCAAGTACTGAAACTTCAGCAATTCCGGGGTAGAACTCAAGGGATTTCTGCCCTCAC
TCACAGGCAAAGCATTAAAGTTAGGTTGCCTCAAAAACCCCCCTGCGGAACTCTTCACTACGTC
TGTAATGGCCACCTCCTCTTCCTTCAGCAACTTGAACAATAAAAAGAAAAAATGGTGCAGGATC
TGAAAGCTTTGAAGGACAGAGCTCAAATGGAC
						
					

			
		

Sequences
Splice junction sequence	CGTCTGTAATGGCCACCTCCTCTTCCTTCAGCAACTTGAACAATAAAAAGAAAAAATGGTGCAG GATCTGAAAGCTTTGAAGGACAGAGCTCAAATGGACctttcccatcatatttacaccgacattg ctgttttctggatgctctttcgtgaacaaaaccaagtcattctcagagaaacttttcgagttgg acccatca
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	CTTTCCCATCATATTTACACCGACATTGCTGTTTTCTGGATGCTCTTTCGTGAACAAAACCAAG TCATTCTCAGAGAAACTTTTCGAGTTGGACCCATCATTTTCGTCTTGCATAAAACGAACAAAAT GAAAATCGTCAACCCTTTCAATCGATAACACTGAAATAACACCATAATATATCTCCTCCAGTGA TGATATCTCCTGGAAGGAACTTTGCAGCTGTGCTTTAAACTCCTCCAAAACCAAGGGCTGAAAA ATCTGAATATATTGCTCAGGTGAACCAAAGCGCACAGGAACTTCCCTAAATTTTCCAACATTCT GACTCTCATCTTTCTTTGTTGATGCCAATCCCACTATCGCATAGTAGTCCATTTGCAAAATCTT TCTAAACCAATCTTCAAGCTTTGGTGGTCTGAATCTTTTGAATCCAGCTTCTTGTCTCTGCCAA CGATCGGATTTCTTGTTGACAGGTGCACAAAGTTGAATGACTTGTCTTTTGGGAACAATGGGCC CTGATTTTGCCAGGGGTAATGACTGCCGTTTCAGAGATTTAAGAGCCAAGTCAAGTGGATCAAC CTCCGTCTCATTTACCACCTTTCTCAAATCCATGCCTTTGGCGTTGGAAATCGCAGATTTCTGA GCCTCTTTTGAAGTACCACGAGGGCCGAGTTCATCAGTAGCCTTCTTTAAGTTGGGTCTGATTC CAGATGAAACAGGATCTTCCACATTCTGTCTTTTTTCCGCTTCCCTACTCATACCAGCAGCCTT GCTTGGTTCAGCGTTTGTTGTGGGAAGATCCCTAACAATATTGCTGGAGCTAACTGTAACATCT CTCTCTGAAAGAACTAACGCTGAAAGCTTTGAAGCATCAATACTAGAAGTACTCTTCTTCAGAG AGGAGATCTGGGAGATGTTTTTGATAGGTAGAAGAGTTTTATTGATGTCAGGTTGATGAGACTT ATGCAGACTAGGTAAATTTTTCAACGATTCCTTTTCTGTCTCATCCACTGTTAGATCCATCATA TTATCTTGTAATTTGCCAACAACATCAACAGGTTTGAGAATCTGGTACTCATTTGCCTTGGGAA CAAGGCGTGAGATTTGTTCTGCTAATTGCTCGATGTCAACATCATCTGAATTAAGAAGAGTCAG AGCATTGTCAATTGTATCACCTGGGAAAAATAGTTCTAAAATGCCAGTTAGAAACTATTAACAA GCAGGAAACAACTTACCAGAGGATAGAACATGTCTGATAGCTTGGACTGCCGAAGAACAAGCGT CACTGTTTGATCCTTGTAAGATGTCTAGCAAAGCCACTAATGCTCGTTTCCAATACGCAACAAC AACCTTAAGTTGTGACCTTCCCCAATCAATGAGATCAGGAAGCCATTTAAGATCAGACGCATCT TTCAAAGTTCCTCTAGTATCACAGGACTCTTCACGGCTTACTCTAAGTTTTCCCAGAACGACAG GAAGAATCTCAAGCAAACGTACACATGTCATCTGCCAAATTAGATAAATGGAACTTTAGCAATA AACCAGACTCGGCTCATATGAAGCAGATACAGCTCAAAGATGACAACCGAAGAGGACAGTAGAA TGAAGCAGAAGCAATAAAGGTAAAACCAAGGTTCACCACGACGACTTTCAAATAATACCTGGCA AAGACTTTGATGGATGAAAGTCTTTCCCTCAACTAGGCACTTCCTTATTATGCCCCATGCAACT TCTGCTAGCAAGTACTGAAACTTCAGCAATTCCGGGGTAGAACTCAAGGGATTTCTGCCCTCAC TCACAGGCAAAGCATTAAAGTTAGGTTGCCTCAAAAACCCCCCTGCGGAACTCTTCACTACGTC TGTAATGGCCACCTCCTCTTCCTTCAGCAACTTGAACAATAAAAAGAAAAAATGGTGCAGGATC TGAAAGCTTTGAAGGACAGAGCTCAAATGGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.174174368

Conservation Information
Conserved circRNAs	NA
PMCS	0.174174368

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							5750778-5749277(-)
						
					

						Potential amino acid sequence
						
							MTCVRLLEILPVVLGKLRVSREESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVA
LLDILQGSNSDACSSAVQAIRHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNM
MDLTVDETEKESLKNLPSLHKSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERD
VTVSSSNIVRDLPTTNAEPSKAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQ
KSAISNAKGMDLRKVVNETEVDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRW
QRQEAGFKRFRPPKLEDWFRKILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIF
QPLVLEEFKAQLQSSFQEISSLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDL
VLFTKEHPENSNVGVNMMGKVHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLR
QPNFNALPVSEGRNPLSSTPELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEIL
PVVLGKLRVSREESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNS
DACSSAVQAIRHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEK
ESLKNLPSLHKSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVR
DLPTTNAEPSKAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGM
DLRKVVNETEVDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRF
RPPKLEDWFRKILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKA
QLQSSFQEISSLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPEN
SNVGVNMMGKVHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLRQPNFNALPVS
EGRNPLSSTPELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEILPVVLGKLRVS
REESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNSDACSSAVQAI
RHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEKESLKNLPSLH
KSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVRDLPTTNAEPS
KAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGMDLRKVVNETE
VDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRFRPPKLEDWFR
KILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKAQLQSSFQEIS
SLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPENSNVGVNMMGK
VHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLRQPNFNALPVSEGRNPLSSTP
ELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEILPVVLGKLRVSREESCDTRGT
LKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNSDACSSAVQAIRHVLSSDDVD
IEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEKESLKNLPSLHKSHQPDINKT
LLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVRDLPTTNAEPSKAAGMSREAE
KRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGMDLRKVVNETEVDPLDLALKS
LKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRFRPPKLEDWFRKILQMDYYAI
VGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKAQLQSSFQEISSLEEIYYGVI
SVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPENSNVGVNMMGK(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	5750778-5749277(-)
Potential amino acid sequence	MTCVRLLEILPVVLGKLRVSREESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVA LLDILQGSNSDACSSAVQAIRHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNM MDLTVDETEKESLKNLPSLHKSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERD VTVSSSNIVRDLPTTNAEPSKAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQ KSAISNAKGMDLRKVVNETEVDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRW QRQEAGFKRFRPPKLEDWFRKILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIF QPLVLEEFKAQLQSSFQEISSLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDL VLFTKEHPENSNVGVNMMGKVHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLR QPNFNALPVSEGRNPLSSTPELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEIL PVVLGKLRVSREESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNS DACSSAVQAIRHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEK ESLKNLPSLHKSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVR DLPTTNAEPSKAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGM DLRKVVNETEVDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRF RPPKLEDWFRKILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKA QLQSSFQEISSLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPEN SNVGVNMMGKVHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLRQPNFNALPVS EGRNPLSSTPELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEILPVVLGKLRVS REESCDTRGTLKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNSDACSSAVQAI RHVLSSDDVDIEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEKESLKNLPSLH KSHQPDINKTLLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVRDLPTTNAEPS KAAGMSREAEKRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGMDLRKVVNETE VDPLDLALKSLKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRFRPPKLEDWFR KILQMDYYAIVGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKAQLQSSFQEIS SLEEIYYGVISVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPENSNVGVNMMGK VHLSSVLQSFQILHHFFFLLFKLLKEEEVAITDVVKSSAGGFLRQPNFNALPVSEGRNPLSSTP ELLKFQYLLAEVAWGIIRKCLVEGKTFIHQSLCQMTCVRLLEILPVVLGKLRVSREESCDTRGT LKDASDLKWLPDLIDWGRSQLKVVVAYWKRALVALLDILQGSNSDACSSAVQAIRHVLSSDDVD IEQLAEQISRLVPKANEYQILKPVDVVGKLQDNMMDLTVDETEKESLKNLPSLHKSHQPDINKT LLPIKNISQISSLKKSTSSIDASKLSALVLSERDVTVSSSNIVRDLPTTNAEPSKAAGMSREAE KRQNVEDPVSSGIRPNLKKATDELGPRGTSKEAQKSAISNAKGMDLRKVVNETEVDPLDLALKS LKRQSLPLAKSGPIVPKRQVIQLCAPVNKKSDRWQRQEAGFKRFRPPKLEDWFRKILQMDYYAI VGLASTKKDESQNVGKFREVPVRFGSPEQYIQIFQPLVLEEFKAQLQSSFQEISSLEEIYYGVI SVLSIERVDDFHFVRFMQDENDGSNSKSFSENDLVLFTKEHPENSNVGVNMMGK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G16800_circ_g.1

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