Plant Circular RNA Database

Detail information of AT5G46910_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G46910_circ_g.1
					
						ID in PlantcircBase
						ath_circ_042761
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 19048149-19049834  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT5G46910						
					
						Parent gene annotation
						
							Transcription factor jumonji (Jmj) family protein / zinc finger 
(C5HC2 type) family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						seedlings
					
						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
						AT5G46910.1:6
AT5G46910.2:6

General Information
CircRNA Name	AT5G46910_circ_g.1
ID in PlantcircBase	ath_circ_042761
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 19048149-19049834 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT5G46910
Parent gene annotation	Transcription factor jumonji (Jmj) family protein / zinc finger (C5HC2 type) family protein
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	seedlings
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	AT5G46910.1:6 AT5G46910.2:6

			
						 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  
						
							AATACATATGGAACCATAGTCTGCAGTTTGTGTAAACGGGATTGCTATTTGGCATTTATCAACT
GCGAGTGTTACTCACACCCCGTTTGTCTACGTCATGgtatttgcaagattgtatctcctttgac
agcaacagttcctgctggcgctgtgttgatgaaagagaaatcaaactttaagttcactaccaga
gtacaacc

									
								

					

						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
						
							GTATTTGCAAGATTGTATCTCCTTTGACAGCAACAGTTCCTGCTGGCGCTGTGTTGATGAAAGA
GAAATCAAACTTTAAGTTCACTACCAGAGTACAACCCCTTCGACTTGCTGAGTGGGATTCTGAT
GATAAAGTTACATTCTTCATGAGTGGGAGGTTTGTTATTAAACCTATTACCATTTAGCTCTACA
TCTTCACTTTATAGTTTGTATTTAATTATTTGTAAACTACTCAGGACCTATACATTTCGCGACT
ATGAGAAAATGGCGAACAAGGTATTTGCACGCAGATATTGCAGTGGTGGCTCTTTGCCCGACTC
ATTCTTGGAGAAAGAATTCTGGAAGGAAATTGCGTGTGGCAAGACTGAAACAGTTGAGTATGCG
TGTGATGTAGATGGTAGCGCATTTTCATCTGCACCAGGTGACCCACTAGGAAGCAGCAAATGGA
ACTTGAATGTATTGATTTACTACAACTTAAGCTTCTCCCTTTTCTATTCTTTTTTGGTTAAGCA
TTAAAGATATCATATGCTTGCATATGCATCGTTATTTACATTTGGTAGTTATATGGCTTTTTAT
ATCTCTACTTTCAGAAAGTTTCAAGGCTTCCTAAGTCTACCCTGCGCCTTCTTGAAACATCCAT
TCCGGTATGTGAGAAGTAGTACAGTTATATTTAGTCACAAGATCACTTTAGAGGTTTCTGCTAA
TTCTCTTCTAACTTGGATTTGCTTGTTTCAGGGAGTCACAGAACCCATGCTTTACATCGGAATG
CTTTTCAGTATGTTTGCCTGGCATGTTGAGGACCATTATTTGTACAGGTAACAAGAGTTTAACG
AATTTTGGTTAAAAGTATATGGGTTACTAAATGTGGCAATCCAAAGAATGTTAATCTCCTTTTT
TTCTGACCTTCTTTCCCAACACAGCATTAATTACCAACATTGTGGAGCATCAAAAACTTGGTAT
GGGATTCCAGGTTCCGCAGCTCTAAAATTTGAAAAGGTGGTTAAAGAGTGTGTGTACAATGATG
ATATTCTATCAACTAATGGAGAAGATGGTGCCTTTGACGTGCTTCTGGGGAAGACAACTATATT
CCCCCCAAAGACTCTGTTGGATCATAATGTGCCAGTGTATAAAGCTGTGCAAAAACCTGGAGAA
TTTGTTGTCACATTCCCCAGGGCTTATCATGCTGGTTTCAGCCACGGTAAAACAAAATTGTCTG
AATCTACTTTTTTTTGTTGGTCAGAGATGTGGTATCATCTTCAACTGAAATTGTGGTTGTGTGA
AAAATTGTAGGTTTTAATTGTGGTGAGGCAGTGAACTTTGCGATGGGTGATTGGTTTCCATTTG
GAGCTATTGCCAGTTGCCGGTATGCTCATCTTAACCGAGTACCGTTGCTTCCTCATGAAGAATT
GATTTGTAAAGAGGCAATGCTCTTGAACTCAAGTTCCAAATCCGAGAATCTGGATCTTACACCT
ACAGAATTGTCAGGACAACGAAGCATCAAGACTGCATTTGTACACCTGATTCGTTTTCTTCATC
TTGCTCGATGGTCTCTAATGAAGTCAGGATTATGCACAGGCCTTGTTTCGAATACATATGGAAC
CATAGTCTGCAGTTTGTGTAAACGGGATTGCTATTTGGCATTTATCAACTGCGAGTGTTACTCA
CACCCCGTTTGTCTACGTCATG
						
					

			
		

Sequences
Splice junction sequence	AATACATATGGAACCATAGTCTGCAGTTTGTGTAAACGGGATTGCTATTTGGCATTTATCAACT GCGAGTGTTACTCACACCCCGTTTGTCTACGTCATGgtatttgcaagattgtatctcctttgac agcaacagttcctgctggcgctgtgttgatgaaagagaaatcaaactttaagttcactaccaga gtacaacc
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	GTATTTGCAAGATTGTATCTCCTTTGACAGCAACAGTTCCTGCTGGCGCTGTGTTGATGAAAGA GAAATCAAACTTTAAGTTCACTACCAGAGTACAACCCCTTCGACTTGCTGAGTGGGATTCTGAT GATAAAGTTACATTCTTCATGAGTGGGAGGTTTGTTATTAAACCTATTACCATTTAGCTCTACA TCTTCACTTTATAGTTTGTATTTAATTATTTGTAAACTACTCAGGACCTATACATTTCGCGACT ATGAGAAAATGGCGAACAAGGTATTTGCACGCAGATATTGCAGTGGTGGCTCTTTGCCCGACTC ATTCTTGGAGAAAGAATTCTGGAAGGAAATTGCGTGTGGCAAGACTGAAACAGTTGAGTATGCG TGTGATGTAGATGGTAGCGCATTTTCATCTGCACCAGGTGACCCACTAGGAAGCAGCAAATGGA ACTTGAATGTATTGATTTACTACAACTTAAGCTTCTCCCTTTTCTATTCTTTTTTGGTTAAGCA TTAAAGATATCATATGCTTGCATATGCATCGTTATTTACATTTGGTAGTTATATGGCTTTTTAT ATCTCTACTTTCAGAAAGTTTCAAGGCTTCCTAAGTCTACCCTGCGCCTTCTTGAAACATCCAT TCCGGTATGTGAGAAGTAGTACAGTTATATTTAGTCACAAGATCACTTTAGAGGTTTCTGCTAA TTCTCTTCTAACTTGGATTTGCTTGTTTCAGGGAGTCACAGAACCCATGCTTTACATCGGAATG CTTTTCAGTATGTTTGCCTGGCATGTTGAGGACCATTATTTGTACAGGTAACAAGAGTTTAACG AATTTTGGTTAAAAGTATATGGGTTACTAAATGTGGCAATCCAAAGAATGTTAATCTCCTTTTT TTCTGACCTTCTTTCCCAACACAGCATTAATTACCAACATTGTGGAGCATCAAAAACTTGGTAT GGGATTCCAGGTTCCGCAGCTCTAAAATTTGAAAAGGTGGTTAAAGAGTGTGTGTACAATGATG ATATTCTATCAACTAATGGAGAAGATGGTGCCTTTGACGTGCTTCTGGGGAAGACAACTATATT CCCCCCAAAGACTCTGTTGGATCATAATGTGCCAGTGTATAAAGCTGTGCAAAAACCTGGAGAA TTTGTTGTCACATTCCCCAGGGCTTATCATGCTGGTTTCAGCCACGGTAAAACAAAATTGTCTG AATCTACTTTTTTTTGTTGGTCAGAGATGTGGTATCATCTTCAACTGAAATTGTGGTTGTGTGA AAAATTGTAGGTTTTAATTGTGGTGAGGCAGTGAACTTTGCGATGGGTGATTGGTTTCCATTTG GAGCTATTGCCAGTTGCCGGTATGCTCATCTTAACCGAGTACCGTTGCTTCCTCATGAAGAATT GATTTGTAAAGAGGCAATGCTCTTGAACTCAAGTTCCAAATCCGAGAATCTGGATCTTACACCT ACAGAATTGTCAGGACAACGAAGCATCAAGACTGCATTTGTACACCTGATTCGTTTTCTTCATC TTGCTCGATGGTCTCTAATGAAGTCAGGATTATGCACAGGCCTTGTTTCGAATACATATGGAAC CATAGTCTGCAGTTTGTGTAAACGGGATTGCTATTTGGCATTTATCAACTGCGAGTGTTACTCA CACCCCGTTTGTCTACGTCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.211995313

Conservation Information
Conserved circRNAs	NA
PMCS	0.211995313

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							19048205-19049831(+)
						
					

						Potential amino acid sequence
						
							MKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYEKMANKVFARRYCSGGSLPDSFL
EKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNLNKVSRLPKSTLRLLETSIPGVT
EPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGSAALKFEKVVKECVYNDDILSTN
GEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTFPRAYHAGFSHGFNCGEAVNFAM
GDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKSENLDLTPTELSGQRSIKTAFVH
LIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAFINCECYSHPVCLRHGICKIVSP
LTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYEKMANKVFARRY
CSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNLNKVSRLPKSTL
RLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGSAALKFEKVVKE
CVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTFPRAYHAGFSHG
FNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKSENLDLTPTELS
GQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAFINCECYSHPVC
LRHGICKIVSPLTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYE
KMANKVFARRYCSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNL
NKVSRLPKSTLRLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGS
AALKFEKVVKECVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTF
PRAYHAGFSHGFNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKS
ENLDLTPTELSGQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAF
INCECYSHPVCLRHGICKIVSPLTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFM
SGRTYTFRDYEKMANKVFARRYCSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAP
GDPLGSSKWNLNKVSRLPKSTLRLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCG
ASKTWYGIPGSAALKFEKVVKECVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKA
VQKPGEFVVTFPRAYHAGFSHGFNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICK
EAMLLNSSSKSENLDLTPTELSGQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVC
SLCKRDCYLAFINCECYSHPVCLRH(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	19048205-19049831(+)
Potential amino acid sequence	MKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYEKMANKVFARRYCSGGSLPDSFL EKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNLNKVSRLPKSTLRLLETSIPGVT EPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGSAALKFEKVVKECVYNDDILSTN GEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTFPRAYHAGFSHGFNCGEAVNFAM GDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKSENLDLTPTELSGQRSIKTAFVH LIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAFINCECYSHPVCLRHGICKIVSP LTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYEKMANKVFARRY CSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNLNKVSRLPKSTL RLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGSAALKFEKVVKE CVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTFPRAYHAGFSHG FNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKSENLDLTPTELS GQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAFINCECYSHPVC LRHGICKIVSPLTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFMSGRTYTFRDYE KMANKVFARRYCSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSKWNL NKVSRLPKSTLRLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCGASKTWYGIPGS AALKFEKVVKECVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKAVQKPGEFVVTF PRAYHAGFSHGFNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKS ENLDLTPTELSGQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVCSLCKRDCYLAF INCECYSHPVCLRHGICKIVSPLTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDSDDKVTFFM SGRTYTFRDYEKMANKVFARRYCSGGSLPDSFLEKEFWKEIACGKTETVEYACDVDGSAFSSAP GDPLGSSKWNLNKVSRLPKSTLRLLETSIPGVTEPMLYIGMLFSMFAWHVEDHYLYSINYQHCG ASKTWYGIPGSAALKFEKVVKECVYNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKA VQKPGEFVVTFPRAYHAGFSHGFNCGEAVNFAMGDWFPFGAIASCRYAHLNRVPLLPHEELICK EAMLLNSSSKSENLDLTPTELSGQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVSNTYGTIVC SLCKRDCYLAFINCECYSHPVCLRH(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Pan et al., 2017

circRNA

Detail information of AT5G46910_circ_g.1

Address

Any questions?

Supported by