Plant Circular RNA Database

Detail information of AT5G06610_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G06610_circ_g.2
					
						ID in PlantcircBase
						ath_circ_036759
					
						Alias
						Ath_circ_FC0071, AT5G06610_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 2031427-2031768  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-full, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT5G06610						
					
						Parent gene annotation
						
							Gb
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G06610_circ_g.1 						
					
						Support reads
						3/NA
					
						Tissues
						root, aerial/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
						AT5G06610.1:1

General Information
CircRNA Name	AT5G06610_circ_g.2
ID in PlantcircBase	ath_circ_036759
Alias	Ath_circ_FC0071, AT5G06610_C1
Organism	Arabidpsis thaliana
Position	chr5: 2031427-2031768 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI-full, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT5G06610
Parent gene annotation	Gb
Parent gene strand	+
Alternative splicing	AT5G06610_circ_g.1
Support reads	3/NA
Tissues	root, aerial/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	AT5G06610.1:1

			
						 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  
						
							TTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCT
AAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAAgtatcatcatcagcacaatacataatac
aacagtttgccgcagcaaccggatgcaagaaacttgcgggcgaaatcaaaaacactttcgtgac
cggaaaaa

									
								

					

						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: 179
Transcript exons: 2031427-2031493,2031657-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCATGGCTC
GGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA
Transcript length: 184
Transcript exons: 2031427-2031483,2031642-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGCGAGTTG
GTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCAT
GGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA
Transcript length: 212
Transcript exons: 2031427-2031536,2031667-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACGTTTCAGCCGGTAGTGAT
GGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGC
CTTTGCGACGTGCTCTACAA
Transcript length: 242
Transcript exons: 2031427-2031584,2031685-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA
TAGCTCAACCGCGGTCAGTAGTGCCTCGTCGGAGAAATTACTTGGCGTTATACACCATGGCTCG
GTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA
Transcript length: 257
Transcript exons: 2031427-2031521,2031607-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGGCGAAATCAAAAACACTTTCGTGACCGGGTCATGTGGCAAATGCTACCTGAAAAATGGCTT
ATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTT
ATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACA
A
Transcript length: 342
Transcript exons: 2031427-2031768
GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA
TAGCTCAACCGCGGTCAGTAGTGCCTCGTCTGTGTCTCATAAGGGATGCTTTGTCATGTGGCAA
ATGCTACCTGAAAAATGGCTTATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTG
ATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAG
GCCTTTGCGACGTGCTCTACAA
						
					

						Genomic sequence
						
							GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG
CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA
TAGCTCAACCGCGGTCAGTAGTGCCTCGTCTGTGTCTCATAAGGGATGCTTTGTCATGTGGCAA
ATGCTACCTGAAAAATGGCTTATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTG
ATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAG
GCCTTTGCGACGTGCTCTACAA
						
					

			
		

Sequences
Splice junction sequence	TTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCT AAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAAgtatcatcatcagcacaatacataatac aacagtttgccgcagcaaccggatgcaagaaacttgcgggcgaaatcaaaaacactttcgtgac cggaaaaa
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: 179 Transcript exons: 2031427-2031493,2031657-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCATGGCTC GGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA Transcript length: 184 Transcript exons: 2031427-2031483,2031642-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGCGAGTTG GTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTTATACACCAT GGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA Transcript length: 212 Transcript exons: 2031427-2031536,2031667-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACGTTTCAGCCGGTAGTGAT GGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGC CTTTGCGACGTGCTCTACAA Transcript length: 242 Transcript exons: 2031427-2031584,2031685-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA TAGCTCAACCGCGGTCAGTAGTGCCTCGTCGGAGAAATTACTTGGCGTTATACACCATGGCTCG GTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACAA Transcript length: 257 Transcript exons: 2031427-2031521,2031607-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGGCGAAATCAAAAACACTTTCGTGACCGGGTCATGTGGCAAATGCTACCTGAAAAATGGCTT ATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTGATGGAGAAATTACTTGGCGTT ATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAGGCCTTTGCGACGTGCTCTACA A Transcript length: 342 Transcript exons: 2031427-2031768 GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA TAGCTCAACCGCGGTCAGTAGTGCCTCGTCTGTGTCTCATAAGGGATGCTTTGTCATGTGGCAA ATGCTACCTGAAAAATGGCTTATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTG ATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAG GCCTTTGCGACGTGCTCTACAA
Genomic sequence	GTATCATCATCAGCACAATACATAATACAACAGTTTGCCGCAGCAACCGGATGCAAGAAACTTG CGGGCGAAATCAAAAACACTTTCGTGACCGGAAAAATCACAATGACTATGGTGAGTGATATTAA TAGCTCAACCGCGGTCAGTAGTGCCTCGTCTGTGTCTCATAAGGGATGCTTTGTCATGTGGCAA ATGCTACCTGAAAAATGGCTTATCGAGTTGGTTGGTGGCGGCCATAAGGTTTCAGCCGGTAGTG ATGGAGAAATTACTTGGCGTTATACACCATGGCTCGGTGATCATGCAGCTAAAGGTGCCATAAG GCCTTTGCGACGTGCTCTACAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.61335078

Conservation Information
Conserved circRNAs	NA
PMCS	0.61335078

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2031532-2031765(+)
						
						Potential amino acid sequence
						
							MTMVSDINSSTAVSSASSVSHKGCFVMWQMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGD
HAAKGAIRPLRRALQVSSSAQYIIQQFAAATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVS
SASSVSHKGCFVMWQMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRAL
QVSSSAQYIIQQFAAATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVSSASSVSHKGCFVMW
QMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRALQVSSSAQYIIQQFA
AATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVSSASSVSHKGCFVMWQMLPEKWLIELVGG
GHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRALQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	2031532-2031765(+)
Potential amino acid sequence	MTMVSDINSSTAVSSASSVSHKGCFVMWQMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGD HAAKGAIRPLRRALQVSSSAQYIIQQFAAATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVS SASSVSHKGCFVMWQMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRAL QVSSSAQYIIQQFAAATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVSSASSVSHKGCFVMW QMLPEKWLIELVGGGHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRALQVSSSAQYIIQQFA AATGCKKLAGEIKNTFVTGKITMTMVSDINSSTAVSSASSVSHKGCFVMWQMLPEKWLIELVGG GHKVSAGSDGEITWRYTPWLGDHAAKGAIRPLRRALQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT5G06610_circ_g.2

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