Plant Circular RNA Database

Detail information of AT5G09410_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT5G09410_circ_g.9
					
						ID in PlantcircBase
						ath_circ_037218
					
						Alias
						At_ciR5617
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 2923709-2924892  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT5G09410						
					
						Parent gene annotation
						
							Ethylene induced calmodulin binding protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G09410_circ_g.8 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						AT5G09410.2:2
AT5G09410.3:3
AT5G09410.1:2
AT5G09410.4:2

General Information
CircRNA Name	AT5G09410_circ_g.9
ID in PlantcircBase	ath_circ_037218
Alias	At_ciR5617
Organism	Arabidpsis thaliana
Position	chr5: 2923709-2924892 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT5G09410
Parent gene annotation	Ethylene induced calmodulin binding protein
Parent gene strand	+
Alternative splicing	AT5G09410_circ_g.8
Support reads	2
Tissues	leaf
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	AT5G09410.2:2 AT5G09410.3:3 AT5G09410.1:2 AT5G09410.4:2

			
						 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  
						
							AGCAGCTGGGATCTCCTTGAGCCCTTCTCTCTCTGAGGATCAGCGTTTCACCATAGTTGATTTT
TGGCCAAAAAGTGCAAAGACAGACGCAGAAGTTGAGgaaatcgctatggttggacacctgctcc
tggcatgcgtaatgtttcacaggttcatgggaacagagtcagagaaagtgattcccagagatta
gttgatgt

									
								

					

						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: 582
Transcript exons: 2923709-2923783,2923885-2923995,2924497-2924892
GAAATCGCTATGGTTGGACACCTGCTCCTGGCATGCGTAATGTTTCACAGGTTCATGGGAACAG
AGTCAGAGAAAATGCAGCCTTCTAATACTGACTCAATGCTGGTGGAAGAAAATTCAGAAAAAGG
TGGGCGGTTAAAGGCAGAGCATATCAGAAATCCTCTTCAAACTCAATTTAATTGGCAGGATGAC
ACTGATCTGGCGTTATTTGAGCAAAGTGCACAAGATAATTTTGAGACATTTTCCAGTCTCCTTG
GCAGTGAAAATCTGCAACCTTTTGGAATTAGTTATCAAGCTCCTCCTTCAAATATGGACTCTGA
ATATATGCCTGTAATGAAAATATTGCGAAGAAGCGAAGATAGTTTGAAAAAAGTCGATAGTTTT
TCTAAGTGGGCTATTAAAGAACTTGGGGAGATGGAGGATTTGCAGATGCAGTCTTCACGTGGAG
ATATTGCATGGACCACTGTTGAATGTGAAACTGCAGCAGCTGGGATCTCCTTGAGCCCTTCTCT
CTCTGAGGATCAGCGTTTCACCATAGTTGATTTTTGGCCAAAAAGTGCAAAGACAGACGCAGAA
GTTGAG
						
					

						Genomic sequence
						
							GAAATCGCTATGGTTGGACACCTGCTCCTGGCATGCGTAATGTTTCACAGGTTCATGGGAACAG
AGTCAGAGAAAGTGATTCCCAGAGATTAGTTGATGTCAGAGCTTTGGATACCGTTGGGAATTCG
CTGACAAGATTTCATGATCAGCCTTATTGTAATAATTTGTTGACTCAGATGCAGCCTTCTAATA
CTGACTCAATGCTGGTGGAAGAAAATTCAGAAAAAGGTGGGCGGTTAAAGGCAGAGCATATCAG
AAATCCTCTTCAAACTCAATTTAATTGGCAGGTAGTGTACTGTGTACGCATGCTTTTTGTAATT
ATTTATGAAAGAGCAATGCATAGATATTATTAGTGAAAGTATAGAAAAAAATGTCCATGGATGT
TAAGAATTATACAAAAGAGAGAGATGTGTTGTGAAGAAAAAGCTTAGAAATGTGTGACGATGTC
ATAGCATAGCAAACTTTGGAGCTAAATTAGATTTATGTATGTTTTACATGCCTTTATCAGCAAT
TTTCTCAGGGTTGATATTTCTGTCATTGACGCATTGTTAAGCTAGTTGGTTGAAGTTGAATTTA
TCTGTCGGTAATTACTCTGAAAAGGTGCATTCGATGCCTTAATCAGTTTTACCTTGACCTCAGA
TAAGAAGATGAAAAACATCTAATACCTACTTTTGTTATATGGCTCCTTCCCCTCTATAGATTGT
AAAGTTCTTTATTTAAGCTCGCATTATTATTATCAGGAAGATTTGTTTTGAAGTGCTCTGATTT
CGAAATACTTATCTATGTAGGATGACACTGATCTGGCGTTATTTGAGCAAAGTGCACAAGATAA
TTTTGAGACATTTTCCAGTCTCCTTGGCAGTGAAAATCTGCAACCTTTTGGAATTAGTTATCAA
GCTCCTCCTTCAAATATGGACTCTGAATATATGCCTGTAATGAAAATATTGCGAAGAAGCGAAG
ATAGTTTGAAAAAAGTCGATAGTTTTTCTAAGTGGGCTATTAAAGAACTTGGGGAGATGGAGGA
TTTGCAGATGCAGTCTTCACGTGGAGATATTGCATGGACCACTGTTGAATGTGAAACTGCAGCA
GCTGGGATCTCCTTGAGCCCTTCTCTCTCTGAGGATCAGCGTTTCACCATAGTTGATTTTTGGC
CAAAAAGTGCAAAGACAGACGCAGAAGTTGAG
						
					

			
		

Sequences
Splice junction sequence	AGCAGCTGGGATCTCCTTGAGCCCTTCTCTCTCTGAGGATCAGCGTTTCACCATAGTTGATTTT TGGCCAAAAAGTGCAAAGACAGACGCAGAAGTTGAGgaaatcgctatggttggacacctgctcc tggcatgcgtaatgtttcacaggttcatgggaacagagtcagagaaagtgattcccagagatta gttgatgt
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: 582 Transcript exons: 2923709-2923783,2923885-2923995,2924497-2924892 GAAATCGCTATGGTTGGACACCTGCTCCTGGCATGCGTAATGTTTCACAGGTTCATGGGAACAG AGTCAGAGAAAATGCAGCCTTCTAATACTGACTCAATGCTGGTGGAAGAAAATTCAGAAAAAGG TGGGCGGTTAAAGGCAGAGCATATCAGAAATCCTCTTCAAACTCAATTTAATTGGCAGGATGAC ACTGATCTGGCGTTATTTGAGCAAAGTGCACAAGATAATTTTGAGACATTTTCCAGTCTCCTTG GCAGTGAAAATCTGCAACCTTTTGGAATTAGTTATCAAGCTCCTCCTTCAAATATGGACTCTGA ATATATGCCTGTAATGAAAATATTGCGAAGAAGCGAAGATAGTTTGAAAAAAGTCGATAGTTTT TCTAAGTGGGCTATTAAAGAACTTGGGGAGATGGAGGATTTGCAGATGCAGTCTTCACGTGGAG ATATTGCATGGACCACTGTTGAATGTGAAACTGCAGCAGCTGGGATCTCCTTGAGCCCTTCTCT CTCTGAGGATCAGCGTTTCACCATAGTTGATTTTTGGCCAAAAAGTGCAAAGACAGACGCAGAA GTTGAG
Genomic sequence	GAAATCGCTATGGTTGGACACCTGCTCCTGGCATGCGTAATGTTTCACAGGTTCATGGGAACAG AGTCAGAGAAAGTGATTCCCAGAGATTAGTTGATGTCAGAGCTTTGGATACCGTTGGGAATTCG CTGACAAGATTTCATGATCAGCCTTATTGTAATAATTTGTTGACTCAGATGCAGCCTTCTAATA CTGACTCAATGCTGGTGGAAGAAAATTCAGAAAAAGGTGGGCGGTTAAAGGCAGAGCATATCAG AAATCCTCTTCAAACTCAATTTAATTGGCAGGTAGTGTACTGTGTACGCATGCTTTTTGTAATT ATTTATGAAAGAGCAATGCATAGATATTATTAGTGAAAGTATAGAAAAAAATGTCCATGGATGT TAAGAATTATACAAAAGAGAGAGATGTGTTGTGAAGAAAAAGCTTAGAAATGTGTGACGATGTC ATAGCATAGCAAACTTTGGAGCTAAATTAGATTTATGTATGTTTTACATGCCTTTATCAGCAAT TTTCTCAGGGTTGATATTTCTGTCATTGACGCATTGTTAAGCTAGTTGGTTGAAGTTGAATTTA TCTGTCGGTAATTACTCTGAAAAGGTGCATTCGATGCCTTAATCAGTTTTACCTTGACCTCAGA TAAGAAGATGAAAAACATCTAATACCTACTTTTGTTATATGGCTCCTTCCCCTCTATAGATTGT AAAGTTCTTTATTTAAGCTCGCATTATTATTATCAGGAAGATTTGTTTTGAAGTGCTCTGATTT CGAAATACTTATCTATGTAGGATGACACTGATCTGGCGTTATTTGAGCAAAGTGCACAAGATAA TTTTGAGACATTTTCCAGTCTCCTTGGCAGTGAAAATCTGCAACCTTTTGGAATTAGTTATCAA GCTCCTCCTTCAAATATGGACTCTGAATATATGCCTGTAATGAAAATATTGCGAAGAAGCGAAG ATAGTTTGAAAAAAGTCGATAGTTTTTCTAAGTGGGCTATTAAAGAACTTGGGGAGATGGAGGA TTTGCAGATGCAGTCTTCACGTGGAGATATTGCATGGACCACTGTTGAATGTGAAACTGCAGCA GCTGGGATCTCCTTGAGCCCTTCTCTCTCTGAGGATCAGCGTTTCACCATAGTTGATTTTTGGC CAAAAAGTGCAAAGACAGACGCAGAAGTTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.182824249

Conservation Information
Conserved circRNAs	NA
PMCS	0.182824249

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2923718-2924889(+)
						
						Potential amino acid sequence
						
							MVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQDDTDL
ALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDSFSKW
AIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDAEVEE
IAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQDDT
DLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDSFS
KWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDAEV
EEIAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQD
DTDLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDS
FSKWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDA
EVEEIAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNW
QDDTDLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKV
DSFSKWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKT
DAEVE(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2923718-2924889(+)
Potential amino acid sequence	MVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQDDTDL ALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDSFSKW AIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDAEVEE IAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQDDT DLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDSFS KWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDAEV EEIAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNWQD DTDLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKVDS FSKWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKTDA EVEEIAMVGHLLLACVMFHRFMGTESEKMQPSNTDSMLVEENSEKGGRLKAEHIRNPLQTQFNW QDDTDLALFEQSAQDNFETFSSLLGSENLQPFGISYQAPPSNMDSEYMPVMKILRRSEDSLKKV DSFSKWAIKELGEMEDLQMQSSRGDIAWTTVECETAAAGISLSPSLSEDQRFTIVDFWPKSAKT DAEVE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT5G09410_circ_g.9

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