Plant Circular RNA Database

Detail information of AT4G35090_circ_g.10

			
						 General Information
					
						CircRNA Name
						AT4G35090_circ_g.10
					
						ID in PlantcircBase
						ath_circ_034755
					
						Alias
						Ath_circ_FC3004
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16701463-16702411  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT4G35090						
					
						Parent gene annotation
						
							catalase 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G35090_circ_g.1 AT4G35090_circ_g.2 AT4G35090_circ_g.3 AT4G35090_circ_g.4 AT4G35090_circ_g.5 AT4G35090_circ_g.6 AT4G35090_circ_g.7 AT4G35090_circ_g.8 AT4G35090_circ_g.9 AT4G35090_circ_g.11 						
					
						Support reads
						260
					
						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  
						
							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
						AT4G35090.3:2
AT4G35090.1:2
AT4G35090.2:2

General Information
CircRNA Name	AT4G35090_circ_g.10
ID in PlantcircBase	ath_circ_034755
Alias	Ath_circ_FC3004
Organism	Arabidpsis thaliana
Position	chr4: 16701463-16702411 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT4G35090
Parent gene annotation	catalase 2
Parent gene strand	-
Alternative splicing	AT4G35090_circ_g.1 AT4G35090_circ_g.2 AT4G35090_circ_g.3 AT4G35090_circ_g.4 AT4G35090_circ_g.5 AT4G35090_circ_g.6 AT4G35090_circ_g.7 AT4G35090_circ_g.8 AT4G35090_circ_g.9 AT4G35090_circ_g.11
Support reads	260
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	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	AT4G35090.3:2 AT4G35090.1:2 AT4G35090.2:2

			
						 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  
						
							ATTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATCCCATCGCGGATGAAGAA
AACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCCcctctcacgttttccagaacagacagca
ggcggagttggatacttctcagcatgacgaacctggtcatacctcgacgggaagtagttaacct
gtaacaac

									
								

					

						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: 867
Transcript exons: 16701463-16701552,16701635-16702411
CCTCTCACGTTTTCCAGAACAGACAGCAGGCGGAGTTGGATACTTCTCAGCATGACGAACCTGG
TCATACCTCGACGGGAAGTAGTTAACCTCCTCGTCCCTGTGCATGAAATTCATGAATCCCTCAT
GGTGGTTGTTGTGGTGAGCACATTTTGGAGCATTGACTGGCAGCTGAAGGTAGTTTGGTCCAAG
ACGGTGTCTCTGAGTATCGGCATAGGAGAAGACACGGGTTTGAAGCAGCTTATCATCTGAGTAA
TGTATCCCTGGGACAATAATTGCAGGACAGAAAGCAAGTTGCTCATTCTCTGCAAAGAAGTTGT
CAATGTTCTTGTTCAACACCATACGTCCAACAGGTTGAAGAGGCAAGATATCCTCAGGCCAGGT
CTTGGTCACATCGAGCGGGTCAAAGTCGAACTTGTCTTCATCAGCAGGATCAATGATTTGGATA
AAGAGCTTCCATTCAGGGTAGTTTCCAGCAGCTATAGAGTCATACAAGTCTTGAGTCGCATGAC
TGTGGTTGGTTCCTCCAACACGAATTGCATCTTCTTCCAAAAGAGACTTGACTCCACAAGTTGG
TTTCCAATGGAACTTCACGTAGTGAGCTTTGCCAGCTTTGTTGATCAACATGTATGTATTGACA
CCTGAACCATCCATGTGCCTGTAATCTTGTGGGATACCGATATCATCGAAGAGGAAAGTGAACA
TGTTCAAACTTTCAGGGTGGTGGGAGAAGAAGTCAAGGATTCTCCAGTTCTCTTGGATGTGAGA
TTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATCCCATCGCGGATGAAGAAA
ACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCC
						
					

						Genomic sequence
						
							CCTCTCACGTTTTCCAGAACAGACAGCAGGCGGAGTTGGATACTTCTCAGCATGACGAACCTGG
TCATACCTCGACGGGAAGTAGTTAACCTGTAACAACAGCTTCTTGTAAGACTATGGTATTCTAG
CTTCAAGTTCGATATAAAGATATTGATAGTGTACTATTAAGTACCTCCTCGTCCCTGTGCATGA
AATTCATGAATCCCTCATGGTGGTTGTTGTGGTGAGCACATTTTGGAGCATTGACTGGCAGCTG
AAGGTAGTTTGGTCCAAGACGGTGTCTCTGAGTATCGGCATAGGAGAAGACACGGGTTTGAAGC
AGCTTATCATCTGAGTAATGTATCCCTGGGACAATAATTGCAGGACAGAAAGCAAGTTGCTCAT
TCTCTGCAAAGAAGTTGTCAATGTTCTTGTTCAACACCATACGTCCAACAGGTTGAAGAGGCAA
GATATCCTCAGGCCAGGTCTTGGTCACATCGAGCGGGTCAAAGTCGAACTTGTCTTCATCAGCA
GGATCAATGATTTGGATAAAGAGCTTCCATTCAGGGTAGTTTCCAGCAGCTATAGAGTCATACA
AGTCTTGAGTCGCATGACTGTGGTTGGTTCCTCCAACACGAATTGCATCTTCTTCCAAAAGAGA
CTTGACTCCACAAGTTGGTTTCCAATGGAACTTCACGTAGTGAGCTTTGCCAGCTTTGTTGATC
AACATGTATGTATTGACACCTGAACCATCCATGTGCCTGTAATCTTGTGGGATACCGATATCAT
CGAAGAGGAAAGTGAACATGTTCAAACTTTCAGGGTGGTGGGAGAAGAAGTCAAGGATTCTCCA
GTTCTCTTGGATGTGAGATTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATC
CCATCGCGGATGAAGAAAACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCC
						
					

			
		

Sequences
Splice junction sequence	ATTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATCCCATCGCGGATGAAGAA AACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCCcctctcacgttttccagaacagacagca ggcggagttggatacttctcagcatgacgaacctggtcatacctcgacgggaagtagttaacct gtaacaac
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: 867 Transcript exons: 16701463-16701552,16701635-16702411 CCTCTCACGTTTTCCAGAACAGACAGCAGGCGGAGTTGGATACTTCTCAGCATGACGAACCTGG TCATACCTCGACGGGAAGTAGTTAACCTCCTCGTCCCTGTGCATGAAATTCATGAATCCCTCAT GGTGGTTGTTGTGGTGAGCACATTTTGGAGCATTGACTGGCAGCTGAAGGTAGTTTGGTCCAAG ACGGTGTCTCTGAGTATCGGCATAGGAGAAGACACGGGTTTGAAGCAGCTTATCATCTGAGTAA TGTATCCCTGGGACAATAATTGCAGGACAGAAAGCAAGTTGCTCATTCTCTGCAAAGAAGTTGT CAATGTTCTTGTTCAACACCATACGTCCAACAGGTTGAAGAGGCAAGATATCCTCAGGCCAGGT CTTGGTCACATCGAGCGGGTCAAAGTCGAACTTGTCTTCATCAGCAGGATCAATGATTTGGATA AAGAGCTTCCATTCAGGGTAGTTTCCAGCAGCTATAGAGTCATACAAGTCTTGAGTCGCATGAC TGTGGTTGGTTCCTCCAACACGAATTGCATCTTCTTCCAAAAGAGACTTGACTCCACAAGTTGG TTTCCAATGGAACTTCACGTAGTGAGCTTTGCCAGCTTTGTTGATCAACATGTATGTATTGACA CCTGAACCATCCATGTGCCTGTAATCTTGTGGGATACCGATATCATCGAAGAGGAAAGTGAACA TGTTCAAACTTTCAGGGTGGTGGGAGAAGAAGTCAAGGATTCTCCAGTTCTCTTGGATGTGAGA TTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATCCCATCGCGGATGAAGAAA ACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCC
Genomic sequence	CCTCTCACGTTTTCCAGAACAGACAGCAGGCGGAGTTGGATACTTCTCAGCATGACGAACCTGG TCATACCTCGACGGGAAGTAGTTAACCTGTAACAACAGCTTCTTGTAAGACTATGGTATTCTAG CTTCAAGTTCGATATAAAGATATTGATAGTGTACTATTAAGTACCTCCTCGTCCCTGTGCATGA AATTCATGAATCCCTCATGGTGGTTGTTGTGGTGAGCACATTTTGGAGCATTGACTGGCAGCTG AAGGTAGTTTGGTCCAAGACGGTGTCTCTGAGTATCGGCATAGGAGAAGACACGGGTTTGAAGC AGCTTATCATCTGAGTAATGTATCCCTGGGACAATAATTGCAGGACAGAAAGCAAGTTGCTCAT TCTCTGCAAAGAAGTTGTCAATGTTCTTGTTCAACACCATACGTCCAACAGGTTGAAGAGGCAA GATATCCTCAGGCCAGGTCTTGGTCACATCGAGCGGGTCAAAGTCGAACTTGTCTTCATCAGCA GGATCAATGATTTGGATAAAGAGCTTCCATTCAGGGTAGTTTCCAGCAGCTATAGAGTCATACA AGTCTTGAGTCGCATGACTGTGGTTGGTTCCTCCAACACGAATTGCATCTTCTTCCAAAAGAGA CTTGACTCCACAAGTTGGTTTCCAATGGAACTTCACGTAGTGAGCTTTGCCAGCTTTGTTGATC AACATGTATGTATTGACACCTGAACCATCCATGTGCCTGTAATCTTGTGGGATACCGATATCAT CGAAGAGGAAAGTGAACATGTTCAAACTTTCAGGGTGGTGGGAGAAGAAGTCAAGGATTCTCCA GTTCTCTTGGATGTGAGATTTTGGGTTCGGCTTAAGAGCGTGGACCATGTCAGGGAACTTCATC CCATCGCGGATGAAGAAAACAGGAAAGTTGTTTCCAACAAGATCAAAGTTCCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.739868129

Conservation Information
Conserved circRNAs	NA
PMCS	0.739868129

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16702358-16701465(-)
						
						Potential amino acid sequence
						
							MKFPDMVHALKPNPKSHIQENWRILDFFSHHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTYML
INKAGKAHYVKFHWKPTCGVKSLLEEDAIRVGGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDP
ADEDKFDFDPLDVTKTWPEDILPLQPVGRMVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKL
LQTRVFSYADTQRHRLGPNYLQLPVNAPKCAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAE
KYPTPPAVCSGKRERGNFDLVGNNFPVFFIRDGMKFPDMVHALKPNPKSHIQENWRILDFFSHH
PESLNMFTFLFDDIGIPQDYRHMDGSGVNTYMLINKAGKAHYVKFHWKPTCGVKSLLEEDAIRV
GGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDPADEDKFDFDPLDVTKTWPEDILPLQPVGRMV
LNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKLLQTRVFSYADTQRHRLGPNYLQLPVNAPKCA
HHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAEKYPTPPAVCSGKRERGNFDLVGNNFPVFFIR
DGMKFPDMVHALKPNPKSHIQENWRILDFFSHHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTY
MLINKAGKAHYVKFHWKPTCGVKSLLEEDAIRVGGTNHSHATQDLYDSIAAGNYPEWKLFIQII
DPADEDKFDFDPLDVTKTWPEDILPLQPVGRMVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDD
KLLQTRVFSYADTQRHRLGPNYLQLPVNAPKCAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRH
AEKYPTPPAVCSGKRERGNFDLVGNNFPVFFIRDGMKFPDMVHALKPNPKSHIQENWRILDFFS
HHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTYMLINKAGKAHYVKFHWKPTCGVKSLLEEDAI
RVGGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDPADEDKFDFDPLDVTKTWPEDILPLQPVGR
MVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKLLQTRVFSYADTQRHRLGPNYLQLPVNAPK
CAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAEKYPTPPAVCSGKRER(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16702358-16701465(-)
Potential amino acid sequence	MKFPDMVHALKPNPKSHIQENWRILDFFSHHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTYML INKAGKAHYVKFHWKPTCGVKSLLEEDAIRVGGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDP ADEDKFDFDPLDVTKTWPEDILPLQPVGRMVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKL LQTRVFSYADTQRHRLGPNYLQLPVNAPKCAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAE KYPTPPAVCSGKRERGNFDLVGNNFPVFFIRDGMKFPDMVHALKPNPKSHIQENWRILDFFSHH PESLNMFTFLFDDIGIPQDYRHMDGSGVNTYMLINKAGKAHYVKFHWKPTCGVKSLLEEDAIRV GGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDPADEDKFDFDPLDVTKTWPEDILPLQPVGRMV LNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKLLQTRVFSYADTQRHRLGPNYLQLPVNAPKCA HHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAEKYPTPPAVCSGKRERGNFDLVGNNFPVFFIR DGMKFPDMVHALKPNPKSHIQENWRILDFFSHHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTY MLINKAGKAHYVKFHWKPTCGVKSLLEEDAIRVGGTNHSHATQDLYDSIAAGNYPEWKLFIQII DPADEDKFDFDPLDVTKTWPEDILPLQPVGRMVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDD KLLQTRVFSYADTQRHRLGPNYLQLPVNAPKCAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRH AEKYPTPPAVCSGKRERGNFDLVGNNFPVFFIRDGMKFPDMVHALKPNPKSHIQENWRILDFFS HHPESLNMFTFLFDDIGIPQDYRHMDGSGVNTYMLINKAGKAHYVKFHWKPTCGVKSLLEEDAI RVGGTNHSHATQDLYDSIAAGNYPEWKLFIQIIDPADEDKFDFDPLDVTKTWPEDILPLQPVGR MVLNKNIDNFFAENEQLAFCPAIIVPGIHYSDDKLLQTRVFSYADTQRHRLGPNYLQLPVNAPK CAHHNNHHEGFMNFMHRDEEVNYFPSRYDQVRHAEKYPTPPAVCSGKRER(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT4G35090_circ_g.10

Address

Any questions?

Supported by