Plant Circular RNA Database

Detail information of AT2G30970_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT2G30970_circ_g.3
					
						ID in PlantcircBase
						ath_circ_015774
					
						Alias
						At_ciR4368
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 13179413-13181077  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT2G30970						
					
						Parent gene annotation
						
							Aspartate aminotransferase, mitochondrial
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G30970_circ_g.1 AT2G30970_circ_g.2 AT2G30970_circ_g.4 AT2G30970_circ_g.5 AT2G30970_circ_g.6 AT2G30970_circ_g.7 AT2G30970_circ_g.8 						
					
						Support reads
						3/2
					
						Tissues
						leaf/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
						AT2G30970.1:6
AT2G30970.2:6

General Information
CircRNA Name	AT2G30970_circ_g.3
ID in PlantcircBase	ath_circ_015774
Alias	At_ciR4368
Organism	Arabidpsis thaliana
Position	chr2: 13179413-13181077 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT2G30970
Parent gene annotation	Aspartate aminotransferase, mitochondrial
Parent gene strand	+
Alternative splicing	AT2G30970_circ_g.1 AT2G30970_circ_g.2 AT2G30970_circ_g.4 AT2G30970_circ_g.5 AT2G30970_circ_g.6 AT2G30970_circ_g.7 AT2G30970_circ_g.8
Support reads	3/2
Tissues	leaf/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	AT2G30970.1:6 AT2G30970.2:6

			
						 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  
						
							TAGACCAATGTACAGCAACCCACCTTTGCATGGTGCTCAGCTGGTCTCAACCATTCTTGAAGAC
CCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAGggagcatatcgtgatgataatgggaagc
ctgttgtcttggaatgtgtcagagaagctgagaaaaggcttgctgggagcactttcatgtaaga
gtttctct

									
								

					

						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: 837
Transcript exons: 13179413-13179498,13179824-13180030,13180154-13180259,13
180344-13180448,13180546-13180718,13180918-13181077
GGAGCATATCGTGATGATAATGGGAAGCCTGTTGTCTTGGAATGTGTCAGAGAAGCTGAGAAAA
GGCTTGCTGGGAGCACTTTCATGGAGTACCTTCCTATGGGAGGAAGTGCCAAAATGGTGGACCT
AACATTGAAGCTTGCCTATGGGGACAATAGTGAATTTATCAAAGATAAAAGAATTGCTGCAGTT
CAGACTCTGTCTGGCACTGGAGCCTGCCGGCTCTTTGCAGACTTCCAGAAACGTTTTTCTCCTG
GTTCACAGATCTACATTCCTGTTCCAACCTGGTCCAACCACCACAACATCTGGAAAGATGCACA
AGTCCCTCAAAAGACATATCATTACTATCATCCAGAAACCAAGGGCTTGGATTTCTCAGCATTG
ATGGATGATGTGAAGAATGCTCCGGAAGGGTCATTCTTCCTTCTTCATGCTTGTGCTCATAATC
CTACTGGAGTAGACCCTACAGAGGAACAATGGAGAGAGATATCACAGCTATTCAAGGCTAAAAA
GCATTTCGCATTCTTCGATATGGCTTACCAAGGTTTTGCTAGTGGAGATCCAGCGAGAGATGCC
AAGTCCATCAGGATCTTTCTTGAAGATGGTCATCATATTGGAATTTCTCAGTCCTATGCAAAAA
ACATGGGACTCTACGGCCAGAGGGTGGGATGTCTCAGTGTGCTTTGTGAAGATCCGAAGCAAGC
CGTGGCTGTGAAAAGTCAATTGCAGCAGCTAGCTAGACCAATGTACAGCAACCCACCTTTGCAT
GGTGCTCAGCTGGTCTCAACCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAG
TTAAG
						
					

						Genomic sequence
						
							GGAGCATATCGTGATGATAATGGGAAGCCTGTTGTCTTGGAATGTGTCAGAGAAGCTGAGAAAA
GGCTTGCTGGGAGCACTTTCATGTAAGAGTTTCTCTTTCTCTCCCCAAATGATCTAACTTTAAT
GCTTCTCTGTTCATTGACATGAATTGATTGTCAAGTTTTGAAATCTTCTTGTACAGTTGGTGAA
GTTCTTGAATTGTAACTGACGAAAAGTATGTGTGATTTGTTGACATAACTTGTTAAATATTGTA
GGTCTTATTAGCCCTTTTGAATATGGTTGTGTTTGACTATGTGGTGCTTAATTTGTATCCTTCA
TATTAAAAAAGATCAACATCAGCAATTATCTCATTGTCCCATATTTCACCAGACTGATCTGAGC
TGTCTTTATTGTATTAATCATCTAAAGGGAGTACCTTCCTATGGGAGGAAGTGCCAAAATGGTG
GACCTAACATTGAAGCTTGCCTATGGGGACAATAGTGAATTTATCAAAGATAAAAGAATTGCTG
CAGTTCAGACTCTGTCTGGCACTGGAGCCTGCCGGCTCTTTGCAGACTTCCAGAAACGTTTTTC
TCCTGGTTCACAGATCTACATTCCTGTTCCAACCTGGTCCAAGTGAGTTTCCTACAGTTGATTT
GATCATTTCTCATGTTAACCTCAACGGTCTACTTTGTAAGTGTGGCCAAGCTTCTTTTGCTTCC
CAAAAATAACATGGTTTATGTTTTCTCTTATGAATAGCCACCACAACATCTGGAAAGATGCACA
AGTCCCTCAAAAGACATATCATTACTATCATCCAGAAACCAAGGGCTTGGATTTCTCAGCATTG
ATGGATGATGTGAAGGTTAGCAAAGAACATCTTCTTCAACTAGCATCTTTTTTACTTCTTCTTG
TTAACATCCTAATTCTGTTAAGCCTTTTTCCATAGAATGCTCCGGAAGGGTCATTCTTCCTTCT
TCATGCTTGTGCTCATAATCCTACTGGAGTAGACCCTACAGAGGAACAATGGAGAGAGATATCA
CAGCTATTCAAGGTGATAACTCATCAGTTTCTTATAGTTATCTGTCTATCATTGACTTTATTTC
TCCTTGATCAGCCCTCTGCAGACTAACATCGAGTTCTCATTTCAGGCTAAAAAGCATTTCGCAT
TCTTCGATATGGCTTACCAAGGTTTTGCTAGTGGAGATCCAGCGAGAGATGCCAAGTCCATCAG
GATCTTTCTTGAAGATGGTCATCATATTGGAATTTCTCAGTCCTATGCAAAAAACATGGGACTC
TACGGCCAGAGGGTGGGATGTCTCAGGTATTCATTTTTCTCAACAAAGAACATCGTTTTCTTCC
TACACGAAGGAAAATATGGAAATTAGAAAGTACAGATATCAGCATTTTAAAAATTTGGATTGTA
GGCGTCAACAAATTGTATGAAATAGCCATCATACAGGTTCATTTAGTGATGAAGTAAAAACTGA
ATATGAACATGACAACTTTGTCTTCTACTGCAGTGTGCTTTGTGAAGATCCGAAGCAAGCCGTG
GCTGTGAAAAGTCAATTGCAGCAGCTAGCTAGACCAATGTACAGCAACCCACCTTTGCATGGTG
CTCAGCTGGTCTCAACCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAA
G
						
					

			
		

Sequences
Splice junction sequence	TAGACCAATGTACAGCAACCCACCTTTGCATGGTGCTCAGCTGGTCTCAACCATTCTTGAAGAC CCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAGggagcatatcgtgatgataatgggaagc ctgttgtcttggaatgtgtcagagaagctgagaaaaggcttgctgggagcactttcatgtaaga gtttctct
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: 837 Transcript exons: 13179413-13179498,13179824-13180030,13180154-13180259,13 180344-13180448,13180546-13180718,13180918-13181077 GGAGCATATCGTGATGATAATGGGAAGCCTGTTGTCTTGGAATGTGTCAGAGAAGCTGAGAAAA GGCTTGCTGGGAGCACTTTCATGGAGTACCTTCCTATGGGAGGAAGTGCCAAAATGGTGGACCT AACATTGAAGCTTGCCTATGGGGACAATAGTGAATTTATCAAAGATAAAAGAATTGCTGCAGTT CAGACTCTGTCTGGCACTGGAGCCTGCCGGCTCTTTGCAGACTTCCAGAAACGTTTTTCTCCTG GTTCACAGATCTACATTCCTGTTCCAACCTGGTCCAACCACCACAACATCTGGAAAGATGCACA AGTCCCTCAAAAGACATATCATTACTATCATCCAGAAACCAAGGGCTTGGATTTCTCAGCATTG ATGGATGATGTGAAGAATGCTCCGGAAGGGTCATTCTTCCTTCTTCATGCTTGTGCTCATAATC CTACTGGAGTAGACCCTACAGAGGAACAATGGAGAGAGATATCACAGCTATTCAAGGCTAAAAA GCATTTCGCATTCTTCGATATGGCTTACCAAGGTTTTGCTAGTGGAGATCCAGCGAGAGATGCC AAGTCCATCAGGATCTTTCTTGAAGATGGTCATCATATTGGAATTTCTCAGTCCTATGCAAAAA ACATGGGACTCTACGGCCAGAGGGTGGGATGTCTCAGTGTGCTTTGTGAAGATCCGAAGCAAGC CGTGGCTGTGAAAAGTCAATTGCAGCAGCTAGCTAGACCAATGTACAGCAACCCACCTTTGCAT GGTGCTCAGCTGGTCTCAACCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAG TTAAG
Genomic sequence	GGAGCATATCGTGATGATAATGGGAAGCCTGTTGTCTTGGAATGTGTCAGAGAAGCTGAGAAAA GGCTTGCTGGGAGCACTTTCATGTAAGAGTTTCTCTTTCTCTCCCCAAATGATCTAACTTTAAT GCTTCTCTGTTCATTGACATGAATTGATTGTCAAGTTTTGAAATCTTCTTGTACAGTTGGTGAA GTTCTTGAATTGTAACTGACGAAAAGTATGTGTGATTTGTTGACATAACTTGTTAAATATTGTA GGTCTTATTAGCCCTTTTGAATATGGTTGTGTTTGACTATGTGGTGCTTAATTTGTATCCTTCA TATTAAAAAAGATCAACATCAGCAATTATCTCATTGTCCCATATTTCACCAGACTGATCTGAGC TGTCTTTATTGTATTAATCATCTAAAGGGAGTACCTTCCTATGGGAGGAAGTGCCAAAATGGTG GACCTAACATTGAAGCTTGCCTATGGGGACAATAGTGAATTTATCAAAGATAAAAGAATTGCTG CAGTTCAGACTCTGTCTGGCACTGGAGCCTGCCGGCTCTTTGCAGACTTCCAGAAACGTTTTTC TCCTGGTTCACAGATCTACATTCCTGTTCCAACCTGGTCCAAGTGAGTTTCCTACAGTTGATTT GATCATTTCTCATGTTAACCTCAACGGTCTACTTTGTAAGTGTGGCCAAGCTTCTTTTGCTTCC CAAAAATAACATGGTTTATGTTTTCTCTTATGAATAGCCACCACAACATCTGGAAAGATGCACA AGTCCCTCAAAAGACATATCATTACTATCATCCAGAAACCAAGGGCTTGGATTTCTCAGCATTG ATGGATGATGTGAAGGTTAGCAAAGAACATCTTCTTCAACTAGCATCTTTTTTACTTCTTCTTG TTAACATCCTAATTCTGTTAAGCCTTTTTCCATAGAATGCTCCGGAAGGGTCATTCTTCCTTCT TCATGCTTGTGCTCATAATCCTACTGGAGTAGACCCTACAGAGGAACAATGGAGAGAGATATCA CAGCTATTCAAGGTGATAACTCATCAGTTTCTTATAGTTATCTGTCTATCATTGACTTTATTTC TCCTTGATCAGCCCTCTGCAGACTAACATCGAGTTCTCATTTCAGGCTAAAAAGCATTTCGCAT TCTTCGATATGGCTTACCAAGGTTTTGCTAGTGGAGATCCAGCGAGAGATGCCAAGTCCATCAG GATCTTTCTTGAAGATGGTCATCATATTGGAATTTCTCAGTCCTATGCAAAAAACATGGGACTC TACGGCCAGAGGGTGGGATGTCTCAGGTATTCATTTTTCTCAACAAAGAACATCGTTTTCTTCC TACACGAAGGAAAATATGGAAATTAGAAAGTACAGATATCAGCATTTTAAAAATTTGGATTGTA GGCGTCAACAAATTGTATGAAATAGCCATCATACAGGTTCATTTAGTGATGAAGTAAAAACTGA ATATGAACATGACAACTTTGTCTTCTACTGCAGTGTGCTTTGTGAAGATCCGAAGCAAGCCGTG GCTGTGAAAAGTCAATTGCAGCAGCTAGCTAGACCAATGTACAGCAACCCACCTTTGCATGGTG CTCAGCTGGTCTCAACCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.235864138

Conservation Information
Conserved circRNAs	NA
PMCS	0.235864138

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13179497-13181074(+)
						
						Potential amino acid sequence
						
							MEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGSQIYIP
VPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPTGVDPT
EEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNMGLYGQ
RVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVKGAYRD
DNGKPVVLECVREAEKRLAGSTFMEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSG
TGACRLFADFQKRFSPGSQIYIPVPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVK
NAPEGSFFLLHACAHNPTGVDPTEEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRI
FLEDGHHIGISQSYAKNMGLYGQRVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLV
STILEDPELKSLWLKEVKGAYRDDNGKPVVLECVREAEKRLAGSTFMEYLPMGGSAKMVDLTLK
LAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGSQIYIPVPTWSNHHNIWKDAQVPQ
KTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPTGVDPTEEQWREISQLFKAKKHFA
FFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNMGLYGQRVGCLSVLCEDPKQAVAV
KSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVKGAYRDDNGKPVVLECVREAEKRL
AGSTFMEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGS
QIYIPVPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPT
GVDPTEEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNM
GLYGQRVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVK
(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13179497-13181074(+)
Potential amino acid sequence	MEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGSQIYIP VPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPTGVDPT EEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNMGLYGQ RVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVKGAYRD DNGKPVVLECVREAEKRLAGSTFMEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSG TGACRLFADFQKRFSPGSQIYIPVPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVK NAPEGSFFLLHACAHNPTGVDPTEEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRI FLEDGHHIGISQSYAKNMGLYGQRVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLV STILEDPELKSLWLKEVKGAYRDDNGKPVVLECVREAEKRLAGSTFMEYLPMGGSAKMVDLTLK LAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGSQIYIPVPTWSNHHNIWKDAQVPQ KTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPTGVDPTEEQWREISQLFKAKKHFA FFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNMGLYGQRVGCLSVLCEDPKQAVAV KSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVKGAYRDDNGKPVVLECVREAEKRL AGSTFMEYLPMGGSAKMVDLTLKLAYGDNSEFIKDKRIAAVQTLSGTGACRLFADFQKRFSPGS QIYIPVPTWSNHHNIWKDAQVPQKTYHYYHPETKGLDFSALMDDVKNAPEGSFFLLHACAHNPT GVDPTEEQWREISQLFKAKKHFAFFDMAYQGFASGDPARDAKSIRIFLEDGHHIGISQSYAKNM GLYGQRVGCLSVLCEDPKQAVAVKSQLQQLARPMYSNPPLHGAQLVSTILEDPELKSLWLKEVK (+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT2G30970_circ_g.3

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