Plant Circular RNA Database

Detail information of AT1G16680_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G16680_circ_g.1
					
						ID in PlantcircBase
						ath_circ_002934
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 5703405-5705081  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT1G16680						
					
						Parent gene annotation
						
							Chaperone DnaJ-domain superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G16680_circ_g.2 AT1G16680_circ_g.3 						
					
						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
						AT1G16680.1:7

General Information
CircRNA Name	AT1G16680_circ_g.1
ID in PlantcircBase	ath_circ_002934
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 5703405-5705081 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT1G16680
Parent gene annotation	Chaperone DnaJ-domain superfamily protein
Parent gene strand	+
Alternative splicing	AT1G16680_circ_g.2 AT1G16680_circ_g.3
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	AT1G16680.1:7

			
						 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  
						
							TAATTATTGTATATATCATCTCTTGTAGATTGAAATACCACGAGCTTTTGTTTGCGCTGAGGGA
AAAGTCTTTGATGTCTCAGAATGGGCTATTTGTCAGggagctgccggtgctgttgtcttgtact
taggtcgcacacctgggatcttcattgtaggactatttggaattttgatattgtggatgtacgc
taattttt

									
								

					

						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
						
							GGAGCTGCCGGTGCTGTTGTCTTGTACTTAGGTCGCACACCTGGGATCTTCATTGTAGGACTAT
TTGGAATTTTGATATTGTGGATGTACGCTAATTTTTGGATCACTGGAACATTATTTATAGTTGG
AGGCAAGTGTCCATTTTCTTTTCCAGAACGATTTATGATGTCATAGTTATATCTTATTGCTCTT
TTTGTCTCTTTCCCATTGTAGTTAAAGCTAATGAAGTTTTCATCTAGTGTTAATGTCTATTGTT
GTTTGAATCAGGTTATTTGTTCTCTTTGAATCACGCACGGGTGGTGGTTCTTATGGCGACAATG
TATGCAATGTACTGTGTCAAAGTCAGACTTGGATGGCCTGGAGTTATTCTCTCGATGAATCTTG
CATTCTTGTCCAACGATATATTTATTTGTCTTCTTCAATGGTGTGATACTGTTAGTGAAAAAAC
ACAAGTGGAGGAGCCAACGAAACCTGAAACTGTAATAGACGAAGAGTTTCCAGGAGAGTTTGAG
TATTCTTCTGTTCCTGCTGAAGAAGCAGAGAAAAAGGTTCATGAAGATAAGTCGTCCACTAAGC
CAGCATCATCGTCAACTGTTGTCAGTAACATGAAGGAGATTTCTACTGTTAAGGTAGTCAAAAT
AGAAACAGATTCAGCGGATGAGATGAAACGAATTCTTGATAGTTTGAATCACTATGAAGCATTG
GGGCTCCCTCTGTTTAAAAAGATTGATGCCGCATTGCTTAAGAAAGACTATAGAAAGAAGGTCT
GTTTTCTTGGCTTGGAAACTATGTCTCTGGTGAATTAAGTTGGTTCTAATTTTATGTGCTGTGT
TACCCTTGTTTTAGGCAATGCTGGTTCATCCGGATAAAAATATGGGAAGTCCTTTGGCAAGTGA
ATCATTCAAGAAACTTCAAAGTGCCTACGAGGTAATTGTTAAAGATGGATCCGTGCTTGGTAAT
TTGCAGTGTGGATTTTACGCTATTTATTTATATTCTGAATATTAAGACATGGAAGGTTGAATTT
ACAGGTTCTTTCGGATTCTGTTAAAAGAAGAGATTATGATGAGCTGTTAAAGAAGGAAGAATCT
CGGACCAAGATTGTCTGTCAGTCCTCGCACGCCTCTTCTCATCAGGTTAGTAGATATAATGTGT
GAGATTTTGAATGCGTCATGTGTTGTTCTATTGTTTTCTTATAAAAGGTGATGAACAGATTTTC
TAATTTCTTCAGAATAGTGCTGCTTATCGATCAGAAGAGTCAAGGCGCATACACTGTACAAAAT
GCGGGAATTCACACATTTGGGTATGTACCAACAGGAGTAAGGCAAAGGCCAGATGGTGTCAGGT
TAGCTAACTTACACTTCTCATTACCAAACATATTGACTTCAAGTTCCTTCGCAGAACATCTAAT
TTGTTAAATGGTTATTGCTTCCATTAAAATTATAGGAGTGTGGTCAATATCATCAAGCCAAAGA
TGGTGACGGATGGGTTGAACACAAAGGGACTCTGGTATTCGAGAAAGCACATAAGGTTTGGCTT
TCAGTTCTTTGGTCCGAATTTTGCTTTTTGGTAATGATGAATAATTATTGTATATATCATCTCT
TGTAGATTGAAATACCACGAGCTTTTGTTTGCGCTGAGGGAAAAGTCTTTGATGTCTCAGAATG
GGCTATTTGTCAG
						
					

			
		

Sequences
Splice junction sequence	TAATTATTGTATATATCATCTCTTGTAGATTGAAATACCACGAGCTTTTGTTTGCGCTGAGGGA AAAGTCTTTGATGTCTCAGAATGGGCTATTTGTCAGggagctgccggtgctgttgtcttgtact taggtcgcacacctgggatcttcattgtaggactatttggaattttgatattgtggatgtacgc taattttt
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	GGAGCTGCCGGTGCTGTTGTCTTGTACTTAGGTCGCACACCTGGGATCTTCATTGTAGGACTAT TTGGAATTTTGATATTGTGGATGTACGCTAATTTTTGGATCACTGGAACATTATTTATAGTTGG AGGCAAGTGTCCATTTTCTTTTCCAGAACGATTTATGATGTCATAGTTATATCTTATTGCTCTT TTTGTCTCTTTCCCATTGTAGTTAAAGCTAATGAAGTTTTCATCTAGTGTTAATGTCTATTGTT GTTTGAATCAGGTTATTTGTTCTCTTTGAATCACGCACGGGTGGTGGTTCTTATGGCGACAATG TATGCAATGTACTGTGTCAAAGTCAGACTTGGATGGCCTGGAGTTATTCTCTCGATGAATCTTG CATTCTTGTCCAACGATATATTTATTTGTCTTCTTCAATGGTGTGATACTGTTAGTGAAAAAAC ACAAGTGGAGGAGCCAACGAAACCTGAAACTGTAATAGACGAAGAGTTTCCAGGAGAGTTTGAG TATTCTTCTGTTCCTGCTGAAGAAGCAGAGAAAAAGGTTCATGAAGATAAGTCGTCCACTAAGC CAGCATCATCGTCAACTGTTGTCAGTAACATGAAGGAGATTTCTACTGTTAAGGTAGTCAAAAT AGAAACAGATTCAGCGGATGAGATGAAACGAATTCTTGATAGTTTGAATCACTATGAAGCATTG GGGCTCCCTCTGTTTAAAAAGATTGATGCCGCATTGCTTAAGAAAGACTATAGAAAGAAGGTCT GTTTTCTTGGCTTGGAAACTATGTCTCTGGTGAATTAAGTTGGTTCTAATTTTATGTGCTGTGT TACCCTTGTTTTAGGCAATGCTGGTTCATCCGGATAAAAATATGGGAAGTCCTTTGGCAAGTGA ATCATTCAAGAAACTTCAAAGTGCCTACGAGGTAATTGTTAAAGATGGATCCGTGCTTGGTAAT TTGCAGTGTGGATTTTACGCTATTTATTTATATTCTGAATATTAAGACATGGAAGGTTGAATTT ACAGGTTCTTTCGGATTCTGTTAAAAGAAGAGATTATGATGAGCTGTTAAAGAAGGAAGAATCT CGGACCAAGATTGTCTGTCAGTCCTCGCACGCCTCTTCTCATCAGGTTAGTAGATATAATGTGT GAGATTTTGAATGCGTCATGTGTTGTTCTATTGTTTTCTTATAAAAGGTGATGAACAGATTTTC TAATTTCTTCAGAATAGTGCTGCTTATCGATCAGAAGAGTCAAGGCGCATACACTGTACAAAAT GCGGGAATTCACACATTTGGGTATGTACCAACAGGAGTAAGGCAAAGGCCAGATGGTGTCAGGT TAGCTAACTTACACTTCTCATTACCAAACATATTGACTTCAAGTTCCTTCGCAGAACATCTAAT TTGTTAAATGGTTATTGCTTCCATTAAAATTATAGGAGTGTGGTCAATATCATCAAGCCAAAGA TGGTGACGGATGGGTTGAACACAAAGGGACTCTGGTATTCGAGAAAGCACATAAGGTTTGGCTT TCAGTTCTTTGGTCCGAATTTTGCTTTTTGGTAATGATGAATAATTATTGTATATATCATCTCT TGTAGATTGAAATACCACGAGCTTTTGTTTGCGCTGAGGGAAAAGTCTTTGATGTCTCAGAATG GGCTATTTGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.1383927

Conservation Information
Conserved circRNAs	NA
PMCS	0.1383927

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							5703489-5705078(+)
						
					

						Potential amino acid sequence
						
							MYANFWITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFIC
LLQWCDTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSN
MKEISTVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMG
SPLASESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRI
HCTKCGNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAE
GKVFDVSEWAICQGAAGAVVLYLGRTPGIFIVGLFGILILWMYANFWITGTLFIVGGYLFSLNH
ARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFICLLQWCDTVSEKTQVEEPTKPETV
IDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSNMKEISTVKVVKIETDSADEMKRI
LDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMGSPLASESFKKLQSAYEVLSDSVK
RRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRIHCTKCGNSHIWVCTNRSKAKARW
CQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAEGKVFDVSEWAICQGAAGAVVLYL
GRTPGIFIVGLFGILILWMYANFWITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWP
GVILSMNLAFLSNDIFICLLQWCDTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKV
HEDKSSTKPASSSTVVSNMKEISTVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALL
KKDYRKKAMLVHPDKNMGSPLASESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSH
ASSHQNSAAYRSEESRRIHCTKCGNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTL
VFEKAHKIEIPRAFVCAEGKVFDVSEWAICQGAAGAVVLYLGRTPGIFIVGLFGILILWMYANF
WITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFICLLQWC
DTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSNMKEIS
TVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMGSPLAS
ESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRIHCTKC
GNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAEGKVFD
VSEWAICQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	5703489-5705078(+)
Potential amino acid sequence	MYANFWITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFIC LLQWCDTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSN MKEISTVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMG SPLASESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRI HCTKCGNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAE GKVFDVSEWAICQGAAGAVVLYLGRTPGIFIVGLFGILILWMYANFWITGTLFIVGGYLFSLNH ARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFICLLQWCDTVSEKTQVEEPTKPETV IDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSNMKEISTVKVVKIETDSADEMKRI LDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMGSPLASESFKKLQSAYEVLSDSVK RRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRIHCTKCGNSHIWVCTNRSKAKARW CQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAEGKVFDVSEWAICQGAAGAVVLYL GRTPGIFIVGLFGILILWMYANFWITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWP GVILSMNLAFLSNDIFICLLQWCDTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKV HEDKSSTKPASSSTVVSNMKEISTVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALL KKDYRKKAMLVHPDKNMGSPLASESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSH ASSHQNSAAYRSEESRRIHCTKCGNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTL VFEKAHKIEIPRAFVCAEGKVFDVSEWAICQGAAGAVVLYLGRTPGIFIVGLFGILILWMYANF WITGTLFIVGGYLFSLNHARVVVLMATMYAMYCVKVRLGWPGVILSMNLAFLSNDIFICLLQWC DTVSEKTQVEEPTKPETVIDEEFPGEFEYSSVPAEEAEKKVHEDKSSTKPASSSTVVSNMKEIS TVKVVKIETDSADEMKRILDSLNHYEALGLPLFKKIDAALLKKDYRKKAMLVHPDKNMGSPLAS ESFKKLQSAYEVLSDSVKRRDYDELLKKEESRTKIVCQSSHASSHQNSAAYRSEESRRIHCTKC GNSHIWVCTNRSKAKARWCQECGQYHQAKDGDGWVEHKGTLVFEKAHKIEIPRAFVCAEGKVFD VSEWAICQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G16680_circ_g.1

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