Plant Circular RNA Database

Detail information of AT3G19740_circ_g.19

			
						 General Information
					
						CircRNA Name
						AT3G19740_circ_g.19
					
						ID in PlantcircBase
						ath_circ_022775
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6861631-6862957  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT3G19740						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G19740_circ_g.1 AT3G19740_circ_g.2 AT3G19740_circ_g.3 AT3G19740_circ_g.4 AT3G19740_circ_g.5 AT3G19740_circ_g.6 AT3G19740_circ_g.7 AT3G19740_circ_g.8 AT3G19740_circ_g.9 AT3G19740_circ_g.10 AT3G19740_circ_g.11 AT3G19740_circ_g.12 AT3G19740_circ_g.13 AT3G19740_circ_g.14 AT3G19740_circ_g.15 AT3G19740_circ_g.16 AT3G19740_circ_g.17 AT3G19740_circ_g.18 						
					
						Support reads
						9
					
						Tissues
						inflorescences, 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
						AT3G19740.1:4

General Information
CircRNA Name	AT3G19740_circ_g.19
ID in PlantcircBase	ath_circ_022775
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 6861631-6862957 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT3G19740
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	AT3G19740_circ_g.1 AT3G19740_circ_g.2 AT3G19740_circ_g.3 AT3G19740_circ_g.4 AT3G19740_circ_g.5 AT3G19740_circ_g.6 AT3G19740_circ_g.7 AT3G19740_circ_g.8 AT3G19740_circ_g.9 AT3G19740_circ_g.10 AT3G19740_circ_g.11 AT3G19740_circ_g.12 AT3G19740_circ_g.13 AT3G19740_circ_g.14 AT3G19740_circ_g.15 AT3G19740_circ_g.16 AT3G19740_circ_g.17 AT3G19740_circ_g.18
Support reads	9
Tissues	inflorescences, 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	AT3G19740.1:4

			
						 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  
						
							GCCTAACTAAGTACTTGGCTTGCTGCAATACCAAACCCCATCTCTGGTTCCTCTTTAATGCCCT
TGTATACATCACAAAGTCCCTTCTCTTCCAATATAActtttcgaactcttcaagttttggcaca
attttcttgatagcttcctcagaaacctcgagacaagcttcctcactgtcactcccatctgctt
tcgcttca

									
								

					

						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: 1026
Transcript exons: 6861631-6861855,6861949-6862043,6862163-6862287,6862377-
6862957
CTTTTCGAACTCTTCAAGTTTTGGCACAATTTTCTTGATAGCTTCCTCAGAAACCTCGAGACAA
GCTTCCTCACTGTCACTCCCATCTGCTTTCGCTTCAGAATCCTCTTCGCTCTGAGCACTAGAAT
CTTCCTCAGCATCAGACTCTGTCGTGGATTCATCTGCTTCCGCTTCTGCGTTCTCACCATCAGA
TTCAGATTCTTCATTGTAGTCATCAGCAAAATCATATGGGGCAAGAACGCTGCTGTCAAGAACC
AACAGGGGAACTTGTACATCTCGAGCAAGTGCTCGTACCAACCTCTCCCGGTAAAGCTCAGTAC
CTGGAACACTCTGGAGCAATATTCTTCCACTTGAAGAATCTAAACGGGCACCATATATGGAAGC
GGCATTCTTTTGTCTTATATGTGAGGTAACACATTCCACCAAAATATCTTTCGTGTGGTCGTGG
ATGTAGTAAGGGAAGGTCTCCCAAGAAAGCTGTATTTTTTCCCAAGGTTGGATTCTCCGTAAGA
ACTCGTTTTTGAATCTTTCTCGTCTATTAACGAAAGGTGACTCCTTCTTTTTGCATTCACTAGC
AAGCTTCTCATTATTGAGCCATTCTATTTGGTCTTGTTCTCCAAGTTGAGCATGAGAATCCAAA
TGCCCAACACCGTTATTACTTTTCTCCTTCCCGGTTTTTCCATCATCTACACCATTCTCTTTGT
TCAAAGAGATATGTTTATCCTCACTAGCATTCCTTCCATCACCCTCAGAACTAAAACTACGCAA
CTGGCTATTCTTCAAAATACTTAAATGATTTCCCGAGGCAATAGTACCACCGCGGGGAGAAAAT
GAACCAAGTAGAGACTTTCTTGTCAAATTTTCACTATTGGTTAATTTATTTGTGAATCCACAAT
ATCTGGAAACCGTATAGTCACGAACGACTGGCCTAACTAAGTACTTGGCTTGCTGCAATACCAA
ACCCCATCTCTGGTTCCTCTTTAATGCCCTTGTATACATCACAAAGTCCCTTCTCTTCCAATAT
AA
						
					

						Genomic sequence
						
							CTTTTCGAACTCTTCAAGTTTTGGCACAATTTTCTTGATAGCTTCCTCAGAAACCTCGAGACAA
GCTTCCTCACTGTCACTCCCATCTGCTTTCGCTTCAGAATCCTCTTCGCTCTGAGCACTAGAAT
CTTCCTCAGCATCAGACTCTGTCGTGGATTCATCTGCTTCCGCTTCTGCGTTCTCACCATCAGA
TTCAGATTCTTCATTGTAGTCATCAGCAAAATCCTGATCCAGAATTAAAAAATATTACATAAAC
ACCAAAAAGAACGAAAGAAAAATGGTGGCATGTTATAGGCAAATTACTCATAAGAATCTCACAT
ATGGGGCAAGAACGCTGCTGTCAAGAACCAACAGGGGAACTTGTACATCTCGAGCAAGTGCTCG
TACCAACCTCTCCCGGTAAAGCTCAGTACCTGAATAAAATTCAAATTTCTTATTGGTCATCTAA
CATTTCCTCAATATTTTTACTTGATAACAGAAGAGCAACATCAAATCCTGGTCTGCCATTTTTA
TTCTATAGTCAATAACAAACCTGGAACACTCTGGAGCAATATTCTTCCACTTGAAGAATCTAAA
CGGGCACCATATATGGAAGCGGCATTCTTTTGTCTTATATGTGAGGTAACACATTCCACCAAAA
TATCTTTCGTGTGGTCGCTGTGAAAAGATAATGAGCAGAATCCATAAGCAGAAATGGAGAAAGA
AACACAACAAGCGAGAAAAAAAAACATGTTGTAGATTATTACTGGATGTAGTAAGGGAAGGTCT
CCCAAGAAAGCTGTATTTTTTCCCAAGGTTGGATTCTCCGTAAGAACTCGTTTTTGAATCTTTC
TCGTCTATTAACGAAAGGTGACTCCTTCTTTTTGCATTCACTAGCAAGCTTCTCATTATTGAGC
CATTCTATTTGGTCTTGTTCTCCAAGTTGAGCATGAGAATCCAAATGCCCAACACCGTTATTAC
TTTTCTCCTTCCCGGTTTTTCCATCATCTACACCATTCTCTTTGTTCAAAGAGATATGTTTATC
CTCACTAGCATTCCTTCCATCACCCTCAGAACTAAAACTACGCAACTGGCTATTCTTCAAAATA
CTTAAATGATTTCCCGAGGCAATAGTACCACCGCGGGGAGAAAATGAACCAAGTAGAGACTTTC
TTGTCAAATTTTCACTATTGGTTAATTTATTTGTGAATCCACAATATCTGGAAACCGTATAGTC
ACGAACGACTGGCCTAACTAAGTACTTGGCTTGCTGCAATACCAAACCCCATCTCTGGTTCCTC
TTTAATGCCCTTGTATACATCACAAAGTCCCTTCTCTTCCAATATAA
						
					

			
		

Sequences
Splice junction sequence	GCCTAACTAAGTACTTGGCTTGCTGCAATACCAAACCCCATCTCTGGTTCCTCTTTAATGCCCT TGTATACATCACAAAGTCCCTTCTCTTCCAATATAActtttcgaactcttcaagttttggcaca attttcttgatagcttcctcagaaacctcgagacaagcttcctcactgtcactcccatctgctt tcgcttca
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: 1026 Transcript exons: 6861631-6861855,6861949-6862043,6862163-6862287,6862377- 6862957 CTTTTCGAACTCTTCAAGTTTTGGCACAATTTTCTTGATAGCTTCCTCAGAAACCTCGAGACAA GCTTCCTCACTGTCACTCCCATCTGCTTTCGCTTCAGAATCCTCTTCGCTCTGAGCACTAGAAT CTTCCTCAGCATCAGACTCTGTCGTGGATTCATCTGCTTCCGCTTCTGCGTTCTCACCATCAGA TTCAGATTCTTCATTGTAGTCATCAGCAAAATCATATGGGGCAAGAACGCTGCTGTCAAGAACC AACAGGGGAACTTGTACATCTCGAGCAAGTGCTCGTACCAACCTCTCCCGGTAAAGCTCAGTAC CTGGAACACTCTGGAGCAATATTCTTCCACTTGAAGAATCTAAACGGGCACCATATATGGAAGC GGCATTCTTTTGTCTTATATGTGAGGTAACACATTCCACCAAAATATCTTTCGTGTGGTCGTGG ATGTAGTAAGGGAAGGTCTCCCAAGAAAGCTGTATTTTTTCCCAAGGTTGGATTCTCCGTAAGA ACTCGTTTTTGAATCTTTCTCGTCTATTAACGAAAGGTGACTCCTTCTTTTTGCATTCACTAGC AAGCTTCTCATTATTGAGCCATTCTATTTGGTCTTGTTCTCCAAGTTGAGCATGAGAATCCAAA TGCCCAACACCGTTATTACTTTTCTCCTTCCCGGTTTTTCCATCATCTACACCATTCTCTTTGT TCAAAGAGATATGTTTATCCTCACTAGCATTCCTTCCATCACCCTCAGAACTAAAACTACGCAA CTGGCTATTCTTCAAAATACTTAAATGATTTCCCGAGGCAATAGTACCACCGCGGGGAGAAAAT GAACCAAGTAGAGACTTTCTTGTCAAATTTTCACTATTGGTTAATTTATTTGTGAATCCACAAT ATCTGGAAACCGTATAGTCACGAACGACTGGCCTAACTAAGTACTTGGCTTGCTGCAATACCAA ACCCCATCTCTGGTTCCTCTTTAATGCCCTTGTATACATCACAAAGTCCCTTCTCTTCCAATAT AA
Genomic sequence	CTTTTCGAACTCTTCAAGTTTTGGCACAATTTTCTTGATAGCTTCCTCAGAAACCTCGAGACAA GCTTCCTCACTGTCACTCCCATCTGCTTTCGCTTCAGAATCCTCTTCGCTCTGAGCACTAGAAT CTTCCTCAGCATCAGACTCTGTCGTGGATTCATCTGCTTCCGCTTCTGCGTTCTCACCATCAGA TTCAGATTCTTCATTGTAGTCATCAGCAAAATCCTGATCCAGAATTAAAAAATATTACATAAAC ACCAAAAAGAACGAAAGAAAAATGGTGGCATGTTATAGGCAAATTACTCATAAGAATCTCACAT ATGGGGCAAGAACGCTGCTGTCAAGAACCAACAGGGGAACTTGTACATCTCGAGCAAGTGCTCG TACCAACCTCTCCCGGTAAAGCTCAGTACCTGAATAAAATTCAAATTTCTTATTGGTCATCTAA CATTTCCTCAATATTTTTACTTGATAACAGAAGAGCAACATCAAATCCTGGTCTGCCATTTTTA TTCTATAGTCAATAACAAACCTGGAACACTCTGGAGCAATATTCTTCCACTTGAAGAATCTAAA CGGGCACCATATATGGAAGCGGCATTCTTTTGTCTTATATGTGAGGTAACACATTCCACCAAAA TATCTTTCGTGTGGTCGCTGTGAAAAGATAATGAGCAGAATCCATAAGCAGAAATGGAGAAAGA AACACAACAAGCGAGAAAAAAAAACATGTTGTAGATTATTACTGGATGTAGTAAGGGAAGGTCT CCCAAGAAAGCTGTATTTTTTCCCAAGGTTGGATTCTCCGTAAGAACTCGTTTTTGAATCTTTC TCGTCTATTAACGAAAGGTGACTCCTTCTTTTTGCATTCACTAGCAAGCTTCTCATTATTGAGC CATTCTATTTGGTCTTGTTCTCCAAGTTGAGCATGAGAATCCAAATGCCCAACACCGTTATTAC TTTTCTCCTTCCCGGTTTTTCCATCATCTACACCATTCTCTTTGTTCAAAGAGATATGTTTATC CTCACTAGCATTCCTTCCATCACCCTCAGAACTAAAACTACGCAACTGGCTATTCTTCAAAATA CTTAAATGATTTCCCGAGGCAATAGTACCACCGCGGGGAGAAAATGAACCAAGTAGAGACTTTC TTGTCAAATTTTCACTATTGGTTAATTTATTTGTGAATCCACAATATCTGGAAACCGTATAGTC ACGAACGACTGGCCTAACTAAGTACTTGGCTTGCTGCAATACCAAACCCCATCTCTGGTTCCTC TTTAATGCCCTTGTATACATCACAAAGTCCCTTCTCTTCCAATATAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.290207646

Conservation Information
Conserved circRNAs	NA
PMCS	0.290207646

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6862931-6861633(-)
						
						Potential amino acid sequence
						
							MYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGGTI
ASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQLG
EQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKDIL
VECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSVLA
PYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSEEA
IKKIVPKLEEFEKLYWKRRDFVMYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKL
TNSENLTRKSLLGSFSPRGGTIASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDD
GKTGKEKSNNGVGHLDSHAQLGEQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPW
EKIQLSWETFPYYIHDHTKDILVECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRER
LVRALARDVQVPLLVLDSSVLAPYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEE
DSEAKADGSDSEEACLEVSEEAIKKIVPKLEEFEKLYWKRRDFVMYTRALKRNQRWGLVLQQAK
YLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGGTIASGNHLSILKNSQLRSFSSE
GDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQLGEQDQIEWLNNEKLASECKKK
ESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKDILVECVTSHIRQKNAASIYGAR
LDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSVLAPYDFADDYNEESESDGENAE
AEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSEEAIKKIVPKLEEFEKLYWKRRD
FVMYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGG
TIASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQ
LGEQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKD
ILVECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSV
LAPYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSE
EAIKKIVPKLEEFEK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6862931-6861633(-)
Potential amino acid sequence	MYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGGTI ASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQLG EQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKDIL VECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSVLA PYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSEEA IKKIVPKLEEFEKLYWKRRDFVMYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKL TNSENLTRKSLLGSFSPRGGTIASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDD GKTGKEKSNNGVGHLDSHAQLGEQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPW EKIQLSWETFPYYIHDHTKDILVECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRER LVRALARDVQVPLLVLDSSVLAPYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEE DSEAKADGSDSEEACLEVSEEAIKKIVPKLEEFEKLYWKRRDFVMYTRALKRNQRWGLVLQQAK YLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGGTIASGNHLSILKNSQLRSFSSE GDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQLGEQDQIEWLNNEKLASECKKK ESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKDILVECVTSHIRQKNAASIYGAR LDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSVLAPYDFADDYNEESESDGENAE AEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSEEAIKKIVPKLEEFEKLYWKRRD FVMYTRALKRNQRWGLVLQQAKYLVRPVVRDYTVSRYCGFTNKLTNSENLTRKSLLGSFSPRGG TIASGNHLSILKNSQLRSFSSEGDGRNASEDKHISLNKENGVDDGKTGKEKSNNGVGHLDSHAQ LGEQDQIEWLNNEKLASECKKKESPFVNRRERFKNEFLRRIQPWEKIQLSWETFPYYIHDHTKD ILVECVTSHIRQKNAASIYGARLDSSSGRILLQSVPGTELYRERLVRALARDVQVPLLVLDSSV LAPYDFADDYNEESESDGENAEAEADESTTESDAEEDSSAQSEEDSEAKADGSDSEEACLEVSE EAIKKIVPKLEEFEK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT3G19740_circ_g.19

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