Plant Circular RNA Database

Detail information of Csa1G172630_circ_g.2

			
						 General Information
					
						CircRNA Name
						Csa1G172630_circ_g.2
					
						ID in PlantcircBase
						csa_circ_000305
					
						Alias
						Chr1:10726667_10731997
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr1: 10726667-10731997  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa1G172630						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							Csa1G172630_circ_g.3 Csa1G172630_circ_g.4 						
					
						Support reads
						NA
					
						Tissues
						leaf,root
					
						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
						Csa1G172630.1:6

General Information
CircRNA Name	Csa1G172630_circ_g.2
ID in PlantcircBase	csa_circ_000305
Alias	Chr1:10726667_10731997
Organism	Cucumis sativus
Position	chrChr1: 10726667-10731997 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa1G172630
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	Csa1G172630_circ_g.3 Csa1G172630_circ_g.4
Support reads	NA
Tissues	leaf,root
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	Csa1G172630.1:6

			
						 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  
						
							TAGAGTAAATAAGAGCTCCTCTCTAATGTCCTCACTCTCCTCCAAGAGAACAACCATTATAGTT
TGCATCGACGAGAGAACACTTTCAGGATGATCCTCCctttgtttttgctccagaatcttctcca
gagccttgagttcaactttgtcaaatgttgagaagactttgagcaaatgtttaactctatcctt
cactggaa

						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: 1005
Transcript exons: 10726667-10726816,10727729-10727874,10727971-10728116,10
729292-10729508,10731565-10731783,10731871-10731997
CTTTGTTTTTGCTCCAGAATCTTCTCCAGAGCCTTGAGTTCAACTTTGTCAAATGTTGAGAAGA
CTTTGAGCAAATGTTTAACTCTATCCTTCACTGGAAACTCAGATGGGAAAAGTGACCCGCAAAG
AATAGATTCAATTACATCAGATCTGAAATCCTTGTCATAAAAGCATCTCAAAATCCTCCCAGGA
ATCCAGGTGAAATCGTCAGGATTGGTTGATTCAACAGAAGATTTCACAGAATAGACCATGTATA
TCTCAGCTAGCCTCTCCATAGTATATTTTTTAACAAGCAGAGATTTGTCTCGAAGACGCTCAGC
AACAAGCTTAATAGTATCGAGTGGAATTGCATTCAAGGAAAGGCATGCCACATCACAAATTACA
GCAACAACTTGTTTTCGGACATTTTCATCAAAGTCCAACAGCCTGTCAGCAAGGGCAGAAATGA
TTTCAGATGCTTCATCTCTAAGAGGATTCGATAGTAGACAGCTCTTCACATGCACTAGGACAGA
CATACGAACCTCAACAATTCTATCTGTCAGTCTTTTTAGAAACTCAGAGAAAACTGGCTGAAAA
ACTTCAGACATAGAAGATCCAGGAAGAGAAAACAGATCTCCAACCAATCCAACAGCCTTTAGAC
GAGTATCCAGCTGATCAGTCAGTAACTCTCCTATGAGGTATGCAGCAATTCCTGAAAGGATCTG
CGGGGCACAGCGATATATGTCATAAATAACTTCATGGTAGTCGATCAGATTATATGGCGGTTTG
TTTTCCCCTGACATTGAAGTTACAAGAAACTGTTTTACAGCAGCTTCAAGTTTTCCAGCAGAAT
TCTGTATGACATTCATAGCAAGCTTCCTTGCAGCCGAAGAAACATTACTTTTATTGCGACCTAA
AGTTGATAATAGAGTAAATAAGAGCTCCTCTCTAATGTCCTCACTCTCCTCCAAGAGAACAACC
ATTATAGTTTGCATCGACGAGAGAACACTTTCAGGATGATCCTCC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TAGAGTAAATAAGAGCTCCTCTCTAATGTCCTCACTCTCCTCCAAGAGAACAACCATTATAGTT TGCATCGACGAGAGAACACTTTCAGGATGATCCTCCctttgtttttgctccagaatcttctcca gagccttgagttcaactttgtcaaatgttgagaagactttgagcaaatgtttaactctatcctt cactggaa
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: 1005 Transcript exons: 10726667-10726816,10727729-10727874,10727971-10728116,10 729292-10729508,10731565-10731783,10731871-10731997 CTTTGTTTTTGCTCCAGAATCTTCTCCAGAGCCTTGAGTTCAACTTTGTCAAATGTTGAGAAGA CTTTGAGCAAATGTTTAACTCTATCCTTCACTGGAAACTCAGATGGGAAAAGTGACCCGCAAAG AATAGATTCAATTACATCAGATCTGAAATCCTTGTCATAAAAGCATCTCAAAATCCTCCCAGGA ATCCAGGTGAAATCGTCAGGATTGGTTGATTCAACAGAAGATTTCACAGAATAGACCATGTATA TCTCAGCTAGCCTCTCCATAGTATATTTTTTAACAAGCAGAGATTTGTCTCGAAGACGCTCAGC AACAAGCTTAATAGTATCGAGTGGAATTGCATTCAAGGAAAGGCATGCCACATCACAAATTACA GCAACAACTTGTTTTCGGACATTTTCATCAAAGTCCAACAGCCTGTCAGCAAGGGCAGAAATGA TTTCAGATGCTTCATCTCTAAGAGGATTCGATAGTAGACAGCTCTTCACATGCACTAGGACAGA CATACGAACCTCAACAATTCTATCTGTCAGTCTTTTTAGAAACTCAGAGAAAACTGGCTGAAAA ACTTCAGACATAGAAGATCCAGGAAGAGAAAACAGATCTCCAACCAATCCAACAGCCTTTAGAC GAGTATCCAGCTGATCAGTCAGTAACTCTCCTATGAGGTATGCAGCAATTCCTGAAAGGATCTG CGGGGCACAGCGATATATGTCATAAATAACTTCATGGTAGTCGATCAGATTATATGGCGGTTTG TTTTCCCCTGACATTGAAGTTACAAGAAACTGTTTTACAGCAGCTTCAAGTTTTCCAGCAGAAT TCTGTATGACATTCATAGCAAGCTTCCTTGCAGCCGAAGAAACATTACTTTTATTGCGACCTAA AGTTGATAATAGAGTAAATAAGAGCTCCTCTCTAATGTCCTCACTCTCCTCCAAGAGAACAACC ATTATAGTTTGCATCGACGAGAGAACACTTTCAGGATGATCCTCC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.470834698

Conservation Information
Conserved circRNAs	NA
PMCS	0.470834698

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10731968-10726669(-)
						
						Potential amino acid sequence
						
							MQTIMVVLLEESEDIREELLFTLLSTLGRNKSNVSSAARKLAMNVIQNSAGKLEAAVKQFLVTS
MSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAAYLIGELLTDQLDTRLKAVGLVGDLFSLPGS
SMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKSCLLSNPLRDEASEIISALADRLLDFDENVR
KQVVAVICDVACLSLNAIPLDTIKLVAERLRDKSLLVKKYTMERLAEIYMVYSVKSSVESTNPD
DFTWIPGRILRCFYDKDFRSDVIESILCGSLFPSEFPVKDRVKHLLKVFSTFDKVELKALEKIL
EQKQREDHPESVLSSMQTIMVVLLEESEDIREELLFTLLSTLGRNKSNVSSAARKLAMNVIQNS
AGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAAYLIGELLTDQLDTRL
KAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKSCLLSNPLRDEASEII
SALADRLLDFDENVRKQVVAVICDVACLSLNAIPLDTIKLVAERLRDKSLLVKKYTMERLAEIY
MVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFRSDVIESILCGSLFPSEFPVKDRVKHLLKVF
STFDKVELKALEKILEQKQREDHPESVLSSMQTIMVVLLEESEDIREELLFTLLSTLGRNKSNV
SSAARKLAMNVIQNSAGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAA
YLIGELLTDQLDTRLKAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKS
CLLSNPLRDEASEIISALADRLLDFDENVRKQVVAVICDVACLSLNAIPLDTIKLVAERLRDKS
LLVKKYTMERLAEIYMVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFRSDVIESILCGSLFPS
EFPVKDRVKHLLKVFSTFDKVELKALEKILEQKQREDHPESVLSSMQTIMVVLLEESEDIREEL
LFTLLSTLGRNKSNVSSAARKLAMNVIQNSAGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIY
DIYRCAPQILSGIAAYLIGELLTDQLDTRLKAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTD
RIVEVRMSVLVHVKSCLLSNPLRDEASEIISALADRLLDFDENVRKQVVAVICDVACLSLNAIP
LDTIKLVAERLRDKSLLVKKYTMERLAEIYMVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFR
SDVIESILCGSLFPSEFPVKDRVKHLLKVFSTFDKVELKALEKILEQKQ
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to salt stress in root

Functional Information
Coding potential	Y
Potential coding position	10731968-10726669(-)
Potential amino acid sequence	MQTIMVVLLEESEDIREELLFTLLSTLGRNKSNVSSAARKLAMNVIQNSAGKLEAAVKQFLVTS MSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAAYLIGELLTDQLDTRLKAVGLVGDLFSLPGS SMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKSCLLSNPLRDEASEIISALADRLLDFDENVR KQVVAVICDVACLSLNAIPLDTIKLVAERLRDKSLLVKKYTMERLAEIYMVYSVKSSVESTNPD DFTWIPGRILRCFYDKDFRSDVIESILCGSLFPSEFPVKDRVKHLLKVFSTFDKVELKALEKIL EQKQREDHPESVLSSMQTIMVVLLEESEDIREELLFTLLSTLGRNKSNVSSAARKLAMNVIQNS AGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAAYLIGELLTDQLDTRL KAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKSCLLSNPLRDEASEII SALADRLLDFDENVRKQVVAVICDVACLSLNAIPLDTIKLVAERLRDKSLLVKKYTMERLAEIY MVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFRSDVIESILCGSLFPSEFPVKDRVKHLLKVF STFDKVELKALEKILEQKQREDHPESVLSSMQTIMVVLLEESEDIREELLFTLLSTLGRNKSNV SSAARKLAMNVIQNSAGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIYDIYRCAPQILSGIAA YLIGELLTDQLDTRLKAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTDRIVEVRMSVLVHVKS CLLSNPLRDEASEIISALADRLLDFDENVRKQVVAVICDVACLSLNAIPLDTIKLVAERLRDKS LLVKKYTMERLAEIYMVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFRSDVIESILCGSLFPS EFPVKDRVKHLLKVFSTFDKVELKALEKILEQKQREDHPESVLSSMQTIMVVLLEESEDIREEL LFTLLSTLGRNKSNVSSAARKLAMNVIQNSAGKLEAAVKQFLVTSMSGENKPPYNLIDYHEVIY DIYRCAPQILSGIAAYLIGELLTDQLDTRLKAVGLVGDLFSLPGSSMSEVFQPVFSEFLKRLTD RIVEVRMSVLVHVKSCLLSNPLRDEASEIISALADRLLDFDENVRKQVVAVICDVACLSLNAIP LDTIKLVAERLRDKSLLVKKYTMERLAEIYMVYSVKSSVESTNPDDFTWIPGRILRCFYDKDFR SDVIESILCGSLFPSEFPVKDRVKHLLKVFSTFDKVELKALEKILEQKQ
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root

			
						 Other Information
					
						References
						Zhu et al., 2019;He et al., 2020

circRNA

Detail information of Csa1G172630_circ_g.2

Address

Any questions?

Supported by