Plant Circular RNA Database

Detail information of AT3G12020_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT3G12020_circ_g.8
					
						ID in PlantcircBase
						ath_circ_021173
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 3830637-3831959  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT3G12020						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G12020_circ_g.4 AT3G12020_circ_g.5 AT3G12020_circ_g.6 AT3G12020_circ_g.7 AT3G12020_circ_g.9 						
					
						Support reads
						1
					
						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
						AT3G12020.4:5
AT3G12020.1:5
AT3G12020.2:5
AT3G12020.3:5

General Information
CircRNA Name	AT3G12020_circ_g.8
ID in PlantcircBase	ath_circ_021173
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 3830637-3831959 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT3G12020
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	+
Alternative splicing	AT3G12020_circ_g.4 AT3G12020_circ_g.5 AT3G12020_circ_g.6 AT3G12020_circ_g.7 AT3G12020_circ_g.9
Support reads	1
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	AT3G12020.4:5 AT3G12020.1:5 AT3G12020.2:5 AT3G12020.3:5

			
						 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  
						
							GTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATGCGTATAGAGAAGAAAAAAAGACC
CGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAGgtgatatcaaagcttacggatgtgaggg
cttcacatgtaccatacagagactctaagttaaccaggatccttcagtcctcattgagtggtca
tgaccgag

									
								

					

						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: 699
Transcript exons: 3830637-3830741,3830856-3830963,3831044-3831190,3831469-
3831651,3831804-3831959
GTGATATCAAAGCTTACGGATGTGAGGGCTTCACATGTACCATACAGAGACTCTAAGTTAACCA
GGATCCTTCAGTCCTCATTGAGTGGTCATGACCGAGTATCTCTCATTTGTACCGTCACTCCTGC
ATCAAGCAGTTCGGAAGAAACACACAATACACTGAAATTTGCTCATCGTGCAAAGCATATTGAG
ATTCAAGCTGAACAAAACAAGATAATTGATGAGAAATCATTAATCAAGAAGTACCAACGCGAGA
TTCGTCAACTGAAGGAAGAGTTGGAACAGCTTAAACAGGAAATTGTACCAGTTCCTCAGCTGAA
GGATATTGGTGCAGATGATATTGTTCTTCTGAAGCAGAAGCTAGAAGATGGTCAAGTCAAGCTG
CAATCTAGACTCGAAGAAGAGGAAGAAGCTAAAGCAGCTCTCCTGAGTCGAATCCAAAGATTGA
CGAAATTAATTTTGGTGTCGACTAAAAATCCACAAGCATCTCGATTACCTCATCGTTTTAATCC
GCGGAGGAGACATTCATTTGGGGAAGAAGAGCTTGCTTACCTACCATACAAGAGGCGGGACATG
ATGGACGATGAGCAACTTGACCTGTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATG
CGTATAGAGAAGAAAAAAAGACCCGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAG
						
					

						Genomic sequence
						
							GTGATATCAAAGCTTACGGATGTGAGGGCTTCACATGTACCATACAGAGACTCTAAGTTAACCA
GGATCCTTCAGTCCTCATTGAGTGGTCATGACCGAGTATCTGTAAGTCTTGTTTAAGCTGTTCT
CAATCCTCGTGGTACAATAAATATAAAATGCACAACATGATCTTTATAGTAGTATACTTTACTG
ATTAGTTTTTCTCTCTGGATATGGTAGCTCATTTGTACCGTCACTCCTGCATCAAGCAGTTCGG
AAGAAACACACAATACACTGAAATTTGCTCATCGTGCAAAGCATATTGAGATTCAAGCTGAACA
AAACAAGGTTTTCCACGCATATCTTCTTTCAGCTCTTATCTTTTGTACTGAAGGTCTTTTTTGG
TTTCTAACTCTAGAAAACTGTAGATAATTGATGAGAAATCATTAATCAAGAAGTACCAACGCGA
GATTCGTCAACTGAAGGAAGAGTTGGAACAGCTTAAACAGGAAATTGTACCAGTTCCTCAGCTG
AAGGATATTGGTGCAGATGATATTGTTCTTCTGAAGCAGAAGGTATGCTTGAAATTTTTGTTCG
GCACTGATGTTTTCTGAGAACAATTTGTCAGAAAGAGATTATGGCAGATAGAGGTCAAATTTGA
TAGAGGTCATTCTGGACACAAAATGCGACAGTTTTTCAATACTACCACTGTTTCCGTCCATTTT
ATTTATATTCTATTAGACAAGTGTGAGGACGTTTTATGTCATTGCCTTTTGGTTTACAATCAAG
CATTTGAGAGAAGCTGAAGTAACCTGGTTTTGTTGTTTTTGGCTATATAACGTGATGATAAAAG
CTAGAAGATGGTCAAGTCAAGCTGCAATCTAGACTCGAAGAAGAGGAAGAAGCTAAAGCAGCTC
TCCTGAGTCGAATCCAAAGATTGACGAAATTAATTTTGGTGTCGACTAAAAATCCACAAGCATC
TCGATTACCTCATCGTTTTAATCCGCGGAGGAGACATTCATTTGGGGAAGAAGAGGTAGAACCA
CTGATTTATGCTGGATAATATACAAATTCTTTCCATCTTTTCTTCTGATGATGGTTCACTTTGA
TCTGAAAGACTTTAGATCTATTATAGCACACAAATTTACTAGCTTCTTTGGCTGATCTTGGTTG
ATGATGTATATTCAGCTTGCTTACCTACCATACAAGAGGCGGGACATGATGGACGATGAGCAAC
TTGACCTGTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATGCGTATAGAGAAGAAAA
AAAGACCCGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAG
						
					

			
		

Sequences
Splice junction sequence	GTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATGCGTATAGAGAAGAAAAAAAGACC CGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAGgtgatatcaaagcttacggatgtgaggg cttcacatgtaccatacagagactctaagttaaccaggatccttcagtcctcattgagtggtca tgaccgag
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: 699 Transcript exons: 3830637-3830741,3830856-3830963,3831044-3831190,3831469- 3831651,3831804-3831959 GTGATATCAAAGCTTACGGATGTGAGGGCTTCACATGTACCATACAGAGACTCTAAGTTAACCA GGATCCTTCAGTCCTCATTGAGTGGTCATGACCGAGTATCTCTCATTTGTACCGTCACTCCTGC ATCAAGCAGTTCGGAAGAAACACACAATACACTGAAATTTGCTCATCGTGCAAAGCATATTGAG ATTCAAGCTGAACAAAACAAGATAATTGATGAGAAATCATTAATCAAGAAGTACCAACGCGAGA TTCGTCAACTGAAGGAAGAGTTGGAACAGCTTAAACAGGAAATTGTACCAGTTCCTCAGCTGAA GGATATTGGTGCAGATGATATTGTTCTTCTGAAGCAGAAGCTAGAAGATGGTCAAGTCAAGCTG CAATCTAGACTCGAAGAAGAGGAAGAAGCTAAAGCAGCTCTCCTGAGTCGAATCCAAAGATTGA CGAAATTAATTTTGGTGTCGACTAAAAATCCACAAGCATCTCGATTACCTCATCGTTTTAATCC GCGGAGGAGACATTCATTTGGGGAAGAAGAGCTTGCTTACCTACCATACAAGAGGCGGGACATG ATGGACGATGAGCAACTTGACCTGTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATG CGTATAGAGAAGAAAAAAAGACCCGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAG
Genomic sequence	GTGATATCAAAGCTTACGGATGTGAGGGCTTCACATGTACCATACAGAGACTCTAAGTTAACCA GGATCCTTCAGTCCTCATTGAGTGGTCATGACCGAGTATCTGTAAGTCTTGTTTAAGCTGTTCT CAATCCTCGTGGTACAATAAATATAAAATGCACAACATGATCTTTATAGTAGTATACTTTACTG ATTAGTTTTTCTCTCTGGATATGGTAGCTCATTTGTACCGTCACTCCTGCATCAAGCAGTTCGG AAGAAACACACAATACACTGAAATTTGCTCATCGTGCAAAGCATATTGAGATTCAAGCTGAACA AAACAAGGTTTTCCACGCATATCTTCTTTCAGCTCTTATCTTTTGTACTGAAGGTCTTTTTTGG TTTCTAACTCTAGAAAACTGTAGATAATTGATGAGAAATCATTAATCAAGAAGTACCAACGCGA GATTCGTCAACTGAAGGAAGAGTTGGAACAGCTTAAACAGGAAATTGTACCAGTTCCTCAGCTG AAGGATATTGGTGCAGATGATATTGTTCTTCTGAAGCAGAAGGTATGCTTGAAATTTTTGTTCG GCACTGATGTTTTCTGAGAACAATTTGTCAGAAAGAGATTATGGCAGATAGAGGTCAAATTTGA TAGAGGTCATTCTGGACACAAAATGCGACAGTTTTTCAATACTACCACTGTTTCCGTCCATTTT ATTTATATTCTATTAGACAAGTGTGAGGACGTTTTATGTCATTGCCTTTTGGTTTACAATCAAG CATTTGAGAGAAGCTGAAGTAACCTGGTTTTGTTGTTTTTGGCTATATAACGTGATGATAAAAG CTAGAAGATGGTCAAGTCAAGCTGCAATCTAGACTCGAAGAAGAGGAAGAAGCTAAAGCAGCTC TCCTGAGTCGAATCCAAAGATTGACGAAATTAATTTTGGTGTCGACTAAAAATCCACAAGCATC TCGATTACCTCATCGTTTTAATCCGCGGAGGAGACATTCATTTGGGGAAGAAGAGGTAGAACCA CTGATTTATGCTGGATAATATACAAATTCTTTCCATCTTTTCTTCTGATGATGGTTCACTTTGA TCTGAAAGACTTTAGATCTATTATAGCACACAAATTTACTAGCTTCTTTGGCTGATCTTGGTTG ATGATGTATATTCAGCTTGCTTACCTACCATACAAGAGGCGGGACATGATGGACGATGAGCAAC TTGACCTGTATGTTTCTGTGGAGGGAAATCATGAGATTAGAGATAATGCGTATAGAGAAGAAAA AAAGACCCGCAAGCACGGATTGTTAAATTGGTTAAAGCCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.207582404

Conservation Information
Conserved circRNAs	NA
PMCS	0.207582404

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3831834-3831956(+)
						
						Potential amino acid sequence
						
							MMDDEQLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPKVISKLTDVRASHVPYRDSKLTR
ILQSSLSGHDRVSLICTVTPASSSSEETHNTLKFAHRAKHIEIQAEQNKIIDEKSLIKKYQREI
RQLKEELEQLKQEIVPVPQLKDIGADDIVLLKQKLEDGQVKLQSRLEEEEEAKAALLSRIQRLT
KLILVSTKNPQASRLPHRFNPRRRHSFGEEELAYLPYKRRDMMDDEQLDLYVSVEGNHEIRDNA
YREEKKTRKHGLLNWLKPKVISKLTDVRASHVPYRDSKLTRILQSSLSGHDRVSLICTVTPASS
SSEETHNTLKFAHRAKHIEIQAEQNKIIDEKSLIKKYQREIRQLKEELEQLKQEIVPVPQLKDI
GADDIVLLKQKLEDGQVKLQSRLEEEEEAKAALLSRIQRLTKLILVSTKNPQASRLPHRFNPRR
RHSFGEEELAYLPYKRRDMMDDEQLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPKVISK
LTDVRASHVPYRDSKLTRILQSSLSGHDRVSLICTVTPASSSSEETHNTLKFAHRAKHIEIQAE
QNKIIDEKSLIKKYQREIRQLKEELEQLKQEIVPVPQLKDIGADDIVLLKQKLEDGQVKLQSRL
EEEEEAKAALLSRIQRLTKLILVSTKNPQASRLPHRFNPRRRHSFGEEELAYLPYKRRDMMDDE
QLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPK(+)
						
						Sponge-miRNAs
						
							ath-miR403-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3831834-3831956(+)
Potential amino acid sequence	MMDDEQLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPKVISKLTDVRASHVPYRDSKLTR ILQSSLSGHDRVSLICTVTPASSSSEETHNTLKFAHRAKHIEIQAEQNKIIDEKSLIKKYQREI RQLKEELEQLKQEIVPVPQLKDIGADDIVLLKQKLEDGQVKLQSRLEEEEEAKAALLSRIQRLT KLILVSTKNPQASRLPHRFNPRRRHSFGEEELAYLPYKRRDMMDDEQLDLYVSVEGNHEIRDNA YREEKKTRKHGLLNWLKPKVISKLTDVRASHVPYRDSKLTRILQSSLSGHDRVSLICTVTPASS SSEETHNTLKFAHRAKHIEIQAEQNKIIDEKSLIKKYQREIRQLKEELEQLKQEIVPVPQLKDI GADDIVLLKQKLEDGQVKLQSRLEEEEEAKAALLSRIQRLTKLILVSTKNPQASRLPHRFNPRR RHSFGEEELAYLPYKRRDMMDDEQLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPKVISK LTDVRASHVPYRDSKLTRILQSSLSGHDRVSLICTVTPASSSSEETHNTLKFAHRAKHIEIQAE QNKIIDEKSLIKKYQREIRQLKEELEQLKQEIVPVPQLKDIGADDIVLLKQKLEDGQVKLQSRL EEEEEAKAALLSRIQRLTKLILVSTKNPQASRLPHRFNPRRRHSFGEEELAYLPYKRRDMMDDE QLDLYVSVEGNHEIRDNAYREEKKTRKHGLLNWLKPK(+)
Sponge-miRNAs	ath-miR403-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT3G12020_circ_g.8

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