Plant Circular RNA Database

Detail information of AT1G06490_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G06490_circ_g.1
					
						ID in PlantcircBase
						ath_circ_000991
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 1979322-1981280  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, circRNA_finder
					
						Parent gene
						
							AT1G06490						
					
						Parent gene annotation
						
							Callose synthase 7
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G06490_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						root
					
						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
						AT1G06490.1:10
AT1G06490.2:10

General Information
CircRNA Name	AT1G06490_circ_g.1
ID in PlantcircBase	ath_circ_000991
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 1979322-1981280 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, circRNA_finder
Parent gene	AT1G06490
Parent gene annotation	Callose synthase 7
Parent gene strand	+
Alternative splicing	AT1G06490_circ_g.2
Support reads	2
Tissues	root
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	AT1G06490.1:10 AT1G06490.2:10

			
						 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  
						
							CTTTTTCAGGGATAAGAGGTGTTTTAGGCTGAAATGGCCAATGAACTTTAAGGCAGATTTTTTC
ATCCACACTGATGAGATCTCGCAAGTTCCGAATCAGgaggaagagattacagaacatatgttgg
cgaagagtgacccaagagaaattcagctctactatcagacgttctatgagaataatatacaaga
tggagaag

									
								

					

						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
						
							GAGGAAGAGATTACAGAACATATGTTGGCGAAGAGTGACCCAAGAGAAATTCAGCTCTACTATC
AGACGTTCTATGAGAATAATATACAAGATGGAGAAGGGAAAAAGACACCGTGAGATCTCTTCTT
AATATTTTGTAATCGTTACATGATAAAGATTTAAATGATGGTCTCCTAACTCTTTTGCTTCTGT
CGATTTTGTCATTACAGGGAGGAGATGGCCAAGCTTTACCAGATAGCGACAGTCTTGTATGATG
TTTTAAAGACAGTGGTTCCTCAAGCAAGAATTGACGACAAGGTTGATTAGTGTTCCCTTACAAT
CTGATCATAAATTTTCCTGAAGAGGGTAATTGTGTCACTTGACATCTTGCTGGTGTTTGAATGT
AGACCCTTAGGTATGCCAAAGAAGTTGAAAGAAAGAAAGAACAGTATGAACACTACAACATTCT
TCCGCTGTACGCTTTAGGGGCTAAAACTGCAGTAATGGAACTCCCTGAGGTTGCATGTGCAAAT
TTTGCCTACTTTACTTGTTCATCATTTTGAACTCTCACTGACATTTTTGCCCAATGTAATTTAG
ATTAAGGCGGCAATTCTTGCTGTCTGCAATGTGGACAATCTTCCTCGACCAAGATTCCATTCAG
CCTCAGCTAACCTGGATGAAGTGGATAGAGAAAGAGGCAGATCTTTTAATGATATTCTCGAGTG
GCTTGCTTTGGTTTTCGGTTTTCAGGTAACTTTCAAGTTTGTTTCTTTGCTACTTTTTCTTTAA
AAGTTTCTATTCCATAAAATATGTCTTGATTAGTCTTCCTATTTTCATGGTGAAAGCGAGGAAA
TGTAGCTAATCAGAGGGAGCATCTTATACTGCTACTTGCCAACATCGATGTGAGGAAGAGGGAT
CTCGAGAATTATGTCGAGGTAAATTTGTGTACTTCGTGGGCTTCCTTCTCTTGAGGATATTACA
ACTATTTACTAACTTCAAGGAAAAATATAGATAAAGCCTAGCACCGTGCGGAAATTGATGGAAA
AATACTTCAAGAATTACAATTCATGGTGCAAGTATTTGCGGTGTGACTCATATTTGAGGTATCA
CTTCTCTTCGATATATCAAGTTATTAACTTCTGAGTAATTATAGAAAAAAAAAGCTTCCCTCGC
ATTTCTTCTACTCTAATATGTATGTATGTTAATGGATGGTTTTCCTATTGGCAGGTTTCCTGCA
GGTTGTGATAAGCAACAACTGAGCCTTCTGTATATCGGCCTTTATCTTCTCATATGGGGAGAAG
CATCAAATGTCCGCTTCATGCCTGAATGCCTTTGCTACATTTTCCACAATGTAGGTTTTCCAAG
TTCAACGTTCTTCATTTCCTCTTATTTGTTTCCACACACAAATAACAACGCACACACTAATTTA
TGTGTACTTATGTTTTTGAGGAACCTCCTTATAGTATAAATACATAAGTAACAATGTTGTTTTC
TTAAATTTTCCTGTGAAGATGGCCAATGAAGTCCATGGAATTCTGTTTGGCAATGTGTACCCTG
TAACTGGGGACACATATGAGGCAGGTGCACCGGACGAAGAAGCATTCTTAAGGAATGTTATAAC
ACCAATCTACCAGGTCTTACGCAAGGTACGTAACTTTCTGAAGCAGTTTTGTTTTTTTCCCTTG
CTTTTTGATTCTTTCTGCTAAGAAAACCGCTTCGTTTGTGAGAAAAGGAAGTCAGGAGAAACAA
AAATGGAAAGGCAAGCCATTCAAAATGGAGAAACTATGATGATCTGAATGAGTACTTTTGGTGA
GTTTTCTTTGATTTGCCATTATATGTATCAGTCAGTCAAGTGTTACTATCTGAGCACATTCATT
TTACTTTTTCAGGGATAAGAGGTGTTTTAGGCTGAAATGGCCAATGAACTTTAAGGCAGATTTT
TTCATCCACACTGATGAGATCTCGCAAGTTCCGAATCAG
						
					

			
		

Sequences
Splice junction sequence	CTTTTTCAGGGATAAGAGGTGTTTTAGGCTGAAATGGCCAATGAACTTTAAGGCAGATTTTTTC ATCCACACTGATGAGATCTCGCAAGTTCCGAATCAGgaggaagagattacagaacatatgttgg cgaagagtgacccaagagaaattcagctctactatcagacgttctatgagaataatatacaaga tggagaag
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	GAGGAAGAGATTACAGAACATATGTTGGCGAAGAGTGACCCAAGAGAAATTCAGCTCTACTATC AGACGTTCTATGAGAATAATATACAAGATGGAGAAGGGAAAAAGACACCGTGAGATCTCTTCTT AATATTTTGTAATCGTTACATGATAAAGATTTAAATGATGGTCTCCTAACTCTTTTGCTTCTGT CGATTTTGTCATTACAGGGAGGAGATGGCCAAGCTTTACCAGATAGCGACAGTCTTGTATGATG TTTTAAAGACAGTGGTTCCTCAAGCAAGAATTGACGACAAGGTTGATTAGTGTTCCCTTACAAT CTGATCATAAATTTTCCTGAAGAGGGTAATTGTGTCACTTGACATCTTGCTGGTGTTTGAATGT AGACCCTTAGGTATGCCAAAGAAGTTGAAAGAAAGAAAGAACAGTATGAACACTACAACATTCT TCCGCTGTACGCTTTAGGGGCTAAAACTGCAGTAATGGAACTCCCTGAGGTTGCATGTGCAAAT TTTGCCTACTTTACTTGTTCATCATTTTGAACTCTCACTGACATTTTTGCCCAATGTAATTTAG ATTAAGGCGGCAATTCTTGCTGTCTGCAATGTGGACAATCTTCCTCGACCAAGATTCCATTCAG CCTCAGCTAACCTGGATGAAGTGGATAGAGAAAGAGGCAGATCTTTTAATGATATTCTCGAGTG GCTTGCTTTGGTTTTCGGTTTTCAGGTAACTTTCAAGTTTGTTTCTTTGCTACTTTTTCTTTAA AAGTTTCTATTCCATAAAATATGTCTTGATTAGTCTTCCTATTTTCATGGTGAAAGCGAGGAAA TGTAGCTAATCAGAGGGAGCATCTTATACTGCTACTTGCCAACATCGATGTGAGGAAGAGGGAT CTCGAGAATTATGTCGAGGTAAATTTGTGTACTTCGTGGGCTTCCTTCTCTTGAGGATATTACA ACTATTTACTAACTTCAAGGAAAAATATAGATAAAGCCTAGCACCGTGCGGAAATTGATGGAAA AATACTTCAAGAATTACAATTCATGGTGCAAGTATTTGCGGTGTGACTCATATTTGAGGTATCA CTTCTCTTCGATATATCAAGTTATTAACTTCTGAGTAATTATAGAAAAAAAAAGCTTCCCTCGC ATTTCTTCTACTCTAATATGTATGTATGTTAATGGATGGTTTTCCTATTGGCAGGTTTCCTGCA GGTTGTGATAAGCAACAACTGAGCCTTCTGTATATCGGCCTTTATCTTCTCATATGGGGAGAAG CATCAAATGTCCGCTTCATGCCTGAATGCCTTTGCTACATTTTCCACAATGTAGGTTTTCCAAG TTCAACGTTCTTCATTTCCTCTTATTTGTTTCCACACACAAATAACAACGCACACACTAATTTA TGTGTACTTATGTTTTTGAGGAACCTCCTTATAGTATAAATACATAAGTAACAATGTTGTTTTC TTAAATTTTCCTGTGAAGATGGCCAATGAAGTCCATGGAATTCTGTTTGGCAATGTGTACCCTG TAACTGGGGACACATATGAGGCAGGTGCACCGGACGAAGAAGCATTCTTAAGGAATGTTATAAC ACCAATCTACCAGGTCTTACGCAAGGTACGTAACTTTCTGAAGCAGTTTTGTTTTTTTCCCTTG CTTTTTGATTCTTTCTGCTAAGAAAACCGCTTCGTTTGTGAGAAAAGGAAGTCAGGAGAAACAA AAATGGAAAGGCAAGCCATTCAAAATGGAGAAACTATGATGATCTGAATGAGTACTTTTGGTGA GTTTTCTTTGATTTGCCATTATATGTATCAGTCAGTCAAGTGTTACTATCTGAGCACATTCATT TTACTTTTTCAGGGATAAGAGGTGTTTTAGGCTGAAATGGCCAATGAACTTTAAGGCAGATTTT TTCATCCACACTGATGAGATCTCGCAAGTTCCGAATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.152385784

Conservation Information
Conserved circRNAs	NA
PMCS	0.152385784

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							1979343-1981277(+)
						
					

						Potential amino acid sequence
						
							MLAKSDPREIQLYYQTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRY
AKEVERKKEQYEHYNILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDR
ERGRSFNDILEWLALVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYF
KNYNSWCKYLRCDSYLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVH
GILFGNVYPVTGDTYEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYF
WDKRCFRLKWPMNFKADFFIHTDEISQVPNQEEEITEHMLAKSDPREIQLYYQTFYENNIQDGE
GKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRYAKEVERKKEQYEHYNILPLYALGAKT
AVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDRERGRSFNDILEWLALVFGFQRGNVAN
QREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYFKNYNSWCKYLRCDSYLRFPAGCDKQQ
LSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVHGILFGNVYPVTGDTYEAGAPDEEAFL
RNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYFWDKRCFRLKWPMNFKADFFIHTDEIS
QVPNQEEEITEHMLAKSDPREIQLYYQTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVV
PQARIDDKTLRYAKEVERKKEQYEHYNILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRF
HSASANLDEVDRERGRSFNDILEWLALVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIK
PSTVRKLMEKYFKNYNSWCKYLRCDSYLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECL
CYIFHNMANEVHGILFGNVYPVTGDTYEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHS
KWRNYDDLNEYFWDKRCFRLKWPMNFKADFFIHTDEISQVPNQEEEITEHMLAKSDPREIQLYY
QTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRYAKEVERKKEQYEHY
NILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDRERGRSFNDILEWLA
LVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYFKNYNSWCKYLRCDS
YLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVHGILFGNVYPVTGDT
YEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYFWDKRCFRLKWPMNF
KADFFIHTDEISQVPNQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	1979343-1981277(+)
Potential amino acid sequence	MLAKSDPREIQLYYQTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRY AKEVERKKEQYEHYNILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDR ERGRSFNDILEWLALVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYF KNYNSWCKYLRCDSYLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVH GILFGNVYPVTGDTYEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYF WDKRCFRLKWPMNFKADFFIHTDEISQVPNQEEEITEHMLAKSDPREIQLYYQTFYENNIQDGE GKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRYAKEVERKKEQYEHYNILPLYALGAKT AVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDRERGRSFNDILEWLALVFGFQRGNVAN QREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYFKNYNSWCKYLRCDSYLRFPAGCDKQQ LSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVHGILFGNVYPVTGDTYEAGAPDEEAFL RNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYFWDKRCFRLKWPMNFKADFFIHTDEIS QVPNQEEEITEHMLAKSDPREIQLYYQTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVV PQARIDDKTLRYAKEVERKKEQYEHYNILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRF HSASANLDEVDRERGRSFNDILEWLALVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIK PSTVRKLMEKYFKNYNSWCKYLRCDSYLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECL CYIFHNMANEVHGILFGNVYPVTGDTYEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHS KWRNYDDLNEYFWDKRCFRLKWPMNFKADFFIHTDEISQVPNQEEEITEHMLAKSDPREIQLYY QTFYENNIQDGEGKKTPEEMAKLYQIATVLYDVLKTVVPQARIDDKTLRYAKEVERKKEQYEHY NILPLYALGAKTAVMELPEIKAAILAVCNVDNLPRPRFHSASANLDEVDRERGRSFNDILEWLA LVFGFQRGNVANQREHLILLLANIDVRKRDLENYVEIKPSTVRKLMEKYFKNYNSWCKYLRCDS YLRFPAGCDKQQLSLLYIGLYLLIWGEASNVRFMPECLCYIFHNMANEVHGILFGNVYPVTGDT YEAGAPDEEAFLRNVITPIYQVLRKEVRRNKNGKASHSKWRNYDDLNEYFWDKRCFRLKWPMNF KADFFIHTDEISQVPNQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G06490_circ_g.1

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