Plant Circular RNA Database

Detail information of Zm00001d015138_circ_g.20

			
						 General Information
					
						CircRNA Name
						Zm00001d015138_circ_g.20
					
						ID in PlantcircBase
						zma_circ_008562
					
						Alias
						Zm05circ00060, GRMZM2G017229_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 76845669-76846640  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d015138						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d015138_circ_g.6 Zm00001d015138_circ_g.7 Zm00001d015138_circ_g.8 Zm00001d015138_circ_g.9 Zm00001d015138_circ_g.10 Zm00001d015138_circ_g.11 Zm00001d015138_circ_g.12 Zm00001d015138_circ_g.13 Zm00001d015138_circ_g.14 Zm00001d015138_circ_g.15 Zm00001d015138_circ_g.16 Zm00001d015138_circ_g.17 Zm00001d015138_circ_g.18 Zm00001d015138_circ_g.19 Zm00001d015138_circ_g.21 Zm00001d015138_circ_g.22 Zm00001d015138_circ_g.23 Zm00001d015138_circ_g.24 Zm00001d015138_circ_g.25 Zm00001d015138_circ_g.26 Zm00001d015138_circ_g.27 Zm00001d015138_circ_g.28 Zm00001d015138_circ_g.29 Zm00001d015138_circ_g.30 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d015138_T005:1
Zm00001d015138_T002:2
Zm00001d015138_T004:2
Zm00001d015138_T001:2

General Information
CircRNA Name	Zm00001d015138_circ_g.20
ID in PlantcircBase	zma_circ_008562
Alias	Zm05circ00060, GRMZM2G017229_C1
Organism	Zea mays
Position	chr5: 76845669-76846640 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d015138
Parent gene annotation	protein_coding
Parent gene strand	-
Alternative splicing	Zm00001d015138_circ_g.6 Zm00001d015138_circ_g.7 Zm00001d015138_circ_g.8 Zm00001d015138_circ_g.9 Zm00001d015138_circ_g.10 Zm00001d015138_circ_g.11 Zm00001d015138_circ_g.12 Zm00001d015138_circ_g.13 Zm00001d015138_circ_g.14 Zm00001d015138_circ_g.15 Zm00001d015138_circ_g.16 Zm00001d015138_circ_g.17 Zm00001d015138_circ_g.18 Zm00001d015138_circ_g.19 Zm00001d015138_circ_g.21 Zm00001d015138_circ_g.22 Zm00001d015138_circ_g.23 Zm00001d015138_circ_g.24 Zm00001d015138_circ_g.25 Zm00001d015138_circ_g.26 Zm00001d015138_circ_g.27 Zm00001d015138_circ_g.28 Zm00001d015138_circ_g.29 Zm00001d015138_circ_g.30
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d015138_T005:1 Zm00001d015138_T002:2 Zm00001d015138_T004:2 Zm00001d015138_T001:2

			
						 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  
						
							CTACTGTATCATTGCCATAAGTTTGAACATTATCTTCATCAATCATGTTCTCACTTCTCCGAGT
TGTTAAAACAGTTTCAGACAAATCACATGGACCGTCctcttcttttctaatttcatcagttgtt
tggccttgttcattagtagaagtttttgatactatatcaacattttctgcattctcctgttcat
ctttgtta

									
								

					

						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: 882
Transcript exons: 76845669-76845920,76846011-76846640
CTCTTCTTTTCTAATTTCATCAGTTGTTTGGCCTTGTTCATTAGTAGAAGTTTTTGATACTATA
TCAACATTTTCTGCATTCTCCTGTTCATCTTTGTTATCATTTTTGGCAGCATCATCTTCTTCAG
TTCCTTCACTTGTTTCCTTAATGTTTTCAACCTTCATAGCCATAATGCTTGGGGTGGATTCCTT
GGATATATGTAGGGCTTTATTCTTGAGAATCTCACTATTGGCTGCCTCTGTTTGTTCAACCTTG
AATGCATCATTGTCTTTTGTGTTGTTTGAAGCTCTGTTTTCGAAATTCTGGTACTCCACTAGTG
GTTCTTTGGCTAAATCATCCCTCTTGTCTTCATGTTTCTGTTCATCTACCTGAAGTTCATCATT
CTGACTTTCAATCTCCTCAACTTCTTTCTGCTTTTGATCTGAGTCAATCTTTTGCAGAGCCTCA
TCTTGTTCCAAAATGGATAAGGCCTCTGTCTCACAACTTTGTTGTTGAAGTGCTTCTACATCAC
AATGTTGCCTGCTATCGTGATCACTGATTGGCTCACTACTTTTCGTTGTATCATCCTTTTCTAT
AGTATCTTGTGCTGCCTGAGGATCATTTTCCAATAAAGCCTGTGATGCTTCTGCAATGACACCT
TCTGTGAGAATCCACATGTCTACATCTCTATCTTGGACATGAGTTTCGTTCTCTCCACTACATT
CACTTATCATTTGGCTTGAATTATGTTCGGTTCCAGCATCTGGCTCTTCTTTGACTTGATGGAT
ACTGTTTGAAGCCTCTACTGTATCATTGCCATAAGTTTGAACATTATCTTCATCAATCATGTTC
TCACTTCTCCGAGTTGTTAAAACAGTTTCAGACAAATCACATGGACCGTC
						
					

						Genomic sequence
						
							CTCTTCTTTTCTAATTTCATCAGTTGTTTGGCCTTGTTCATTAGTAGAAGTTTTTGATACTATA
TCAACATTTTCTGCATTCTCCTGTTCATCTTTGTTATCATTTTTGGCAGCATCATCTTCTTCAG
TTCCTTCACTTGTTTCCTTAATGTTTTCAACCTTCATAGCCATAATGCTTGGGGTGGATTCCTT
GGATATATGTAGGGCTTTATTCTTGAGAATCTCACTATTGGCTGCCTCTGTTTGTTCAACCTGC
AGGGTTTCAATGGTAAAATTTGTTTTTCGTTGTTTCTGATTAAAGAAATCTAGAAAAGGTAACA
CATACAATGTCCTTTTATTTACCTTGAATGCATCATTGTCTTTTGTGTTGTTTGAAGCTCTGTT
TTCGAAATTCTGGTACTCCACTAGTGGTTCTTTGGCTAAATCATCCCTCTTGTCTTCATGTTTC
TGTTCATCTACCTGAAGTTCATCATTCTGACTTTCAATCTCCTCAACTTCTTTCTGCTTTTGAT
CTGAGTCAATCTTTTGCAGAGCCTCATCTTGTTCCAAAATGGATAAGGCCTCTGTCTCACAACT
TTGTTGTTGAAGTGCTTCTACATCACAATGTTGCCTGCTATCGTGATCACTGATTGGCTCACTA
CTTTTCGTTGTATCATCCTTTTCTATAGTATCTTGTGCTGCCTGAGGATCATTTTCCAATAAAG
CCTGTGATGCTTCTGCAATGACACCTTCTGTGAGAATCCACATGTCTACATCTCTATCTTGGAC
ATGAGTTTCGTTCTCTCCACTACATTCACTTATCATTTGGCTTGAATTATGTTCGGTTCCAGCA
TCTGGCTCTTCTTTGACTTGATGGATACTGTTTGAAGCCTCTACTGTATCATTGCCATAAGTTT
GAACATTATCTTCATCAATCATGTTCTCACTTCTCCGAGTTGTTAAAACAGTTTCAGACAAATC
ACATGGACCGTC
						
					

			
		

Sequences
Splice junction sequence	CTACTGTATCATTGCCATAAGTTTGAACATTATCTTCATCAATCATGTTCTCACTTCTCCGAGT TGTTAAAACAGTTTCAGACAAATCACATGGACCGTCctcttcttttctaatttcatcagttgtt tggccttgttcattagtagaagtttttgatactatatcaacattttctgcattctcctgttcat ctttgtta
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: 882 Transcript exons: 76845669-76845920,76846011-76846640 CTCTTCTTTTCTAATTTCATCAGTTGTTTGGCCTTGTTCATTAGTAGAAGTTTTTGATACTATA TCAACATTTTCTGCATTCTCCTGTTCATCTTTGTTATCATTTTTGGCAGCATCATCTTCTTCAG TTCCTTCACTTGTTTCCTTAATGTTTTCAACCTTCATAGCCATAATGCTTGGGGTGGATTCCTT GGATATATGTAGGGCTTTATTCTTGAGAATCTCACTATTGGCTGCCTCTGTTTGTTCAACCTTG AATGCATCATTGTCTTTTGTGTTGTTTGAAGCTCTGTTTTCGAAATTCTGGTACTCCACTAGTG GTTCTTTGGCTAAATCATCCCTCTTGTCTTCATGTTTCTGTTCATCTACCTGAAGTTCATCATT CTGACTTTCAATCTCCTCAACTTCTTTCTGCTTTTGATCTGAGTCAATCTTTTGCAGAGCCTCA TCTTGTTCCAAAATGGATAAGGCCTCTGTCTCACAACTTTGTTGTTGAAGTGCTTCTACATCAC AATGTTGCCTGCTATCGTGATCACTGATTGGCTCACTACTTTTCGTTGTATCATCCTTTTCTAT AGTATCTTGTGCTGCCTGAGGATCATTTTCCAATAAAGCCTGTGATGCTTCTGCAATGACACCT TCTGTGAGAATCCACATGTCTACATCTCTATCTTGGACATGAGTTTCGTTCTCTCCACTACATT CACTTATCATTTGGCTTGAATTATGTTCGGTTCCAGCATCTGGCTCTTCTTTGACTTGATGGAT ACTGTTTGAAGCCTCTACTGTATCATTGCCATAAGTTTGAACATTATCTTCATCAATCATGTTC TCACTTCTCCGAGTTGTTAAAACAGTTTCAGACAAATCACATGGACCGTC
Genomic sequence	CTCTTCTTTTCTAATTTCATCAGTTGTTTGGCCTTGTTCATTAGTAGAAGTTTTTGATACTATA TCAACATTTTCTGCATTCTCCTGTTCATCTTTGTTATCATTTTTGGCAGCATCATCTTCTTCAG TTCCTTCACTTGTTTCCTTAATGTTTTCAACCTTCATAGCCATAATGCTTGGGGTGGATTCCTT GGATATATGTAGGGCTTTATTCTTGAGAATCTCACTATTGGCTGCCTCTGTTTGTTCAACCTGC AGGGTTTCAATGGTAAAATTTGTTTTTCGTTGTTTCTGATTAAAGAAATCTAGAAAAGGTAACA CATACAATGTCCTTTTATTTACCTTGAATGCATCATTGTCTTTTGTGTTGTTTGAAGCTCTGTT TTCGAAATTCTGGTACTCCACTAGTGGTTCTTTGGCTAAATCATCCCTCTTGTCTTCATGTTTC TGTTCATCTACCTGAAGTTCATCATTCTGACTTTCAATCTCCTCAACTTCTTTCTGCTTTTGAT CTGAGTCAATCTTTTGCAGAGCCTCATCTTGTTCCAAAATGGATAAGGCCTCTGTCTCACAACT TTGTTGTTGAAGTGCTTCTACATCACAATGTTGCCTGCTATCGTGATCACTGATTGGCTCACTA CTTTTCGTTGTATCATCCTTTTCTATAGTATCTTGTGCTGCCTGAGGATCATTTTCCAATAAAG CCTGTGATGCTTCTGCAATGACACCTTCTGTGAGAATCCACATGTCTACATCTCTATCTTGGAC ATGAGTTTCGTTCTCTCCACTACATTCACTTATCATTTGGCTTGAATTATGTTCGGTTCCAGCA TCTGGCTCTTCTTTGACTTGATGGATACTGTTTGAAGCCTCTACTGTATCATTGCCATAAGTTT GAACATTATCTTCATCAATCATGTTCTCACTTCTCCGAGTTGTTAAAACAGTTTCAGACAAATC ACATGGACCGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.054129246

Conservation Information
Conserved circRNAs	NA
PMCS	0.054129246

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							76846586-76846128(+)
76846588-76845671(-)
76845711-76846609(-)
						
					

						Potential amino acid sequence
						
							MFSLLRVVKTVSDKSHGPSSSFLISSVVWPCSLVEVFDTISTFSAFSCSSLLSFLAASSSSVPS
LVSLMFSTFIAIMLGVDSLDICRALFLRISLLAASVCSTLNASLSFVLFEALFSKFWYSTSGSL
AKSSLLSSCFCSST*(+)
MIDEDNVQTYGNDTVEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEG
VIAEASQALLENDPQAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDE
ALQKIDSDQKQKEVEEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFK
VEQTEAANSEILKNKALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDI
VSKTSTNEQGQTTDEIRKEEDGPCDLSETVLTTRRSENMIDEDNVQTYGNDTVEASNSIHQVKE
EPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEGVIAEASQALLENDPQAAQDTIEKDDT
TKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDEALQKIDSDQKQKEVEEIESQNDELQV
DEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFKVEQTEAANSEILKNKALHISKESTPS
IMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDIVSKTSTNEQGQTTDEIRKEEDGPCDL
SETVLTTRRSENMIDEDNVQTYGNDTVEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQ
DRDVDMWILTEGVIAEASQALLENDPQAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSC
ETEALSILEQDEALQKIDSDQKQKEVEEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENR
ASNNTKDNDAFKVEQTEAANSEILKNKALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDN
KDEQENAENVDIVSKTSTNEQGQTTDEIRKEEDGPCDLSETVLTTRRSENMIDEDNVQTYGNDT
VEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEGVIAEASQALLENDP
QAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDEALQKIDSDQKQKEV
EEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFKVEQTEAANSEILKN
KALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDIVSKTSTNEQGQTTD
EIRKEE(-)
MNKAKQLMKLEKKRTVHVICLKLF*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to drought stress
					

			
		

Functional Information
Coding potential	Y
Potential coding position	76846586-76846128(+) 76846588-76845671(-) 76845711-76846609(-)
Potential amino acid sequence	MFSLLRVVKTVSDKSHGPSSSFLISSVVWPCSLVEVFDTISTFSAFSCSSLLSFLAASSSSVPS LVSLMFSTFIAIMLGVDSLDICRALFLRISLLAASVCSTLNASLSFVLFEALFSKFWYSTSGSL AKSSLLSSCFCSST(+) MIDEDNVQTYGNDTVEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEG VIAEASQALLENDPQAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDE ALQKIDSDQKQKEVEEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFK VEQTEAANSEILKNKALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDI VSKTSTNEQGQTTDEIRKEEDGPCDLSETVLTTRRSENMIDEDNVQTYGNDTVEASNSIHQVKE EPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEGVIAEASQALLENDPQAAQDTIEKDDT TKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDEALQKIDSDQKQKEVEEIESQNDELQV DEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFKVEQTEAANSEILKNKALHISKESTPS IMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDIVSKTSTNEQGQTTDEIRKEEDGPCDL SETVLTTRRSENMIDEDNVQTYGNDTVEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQ DRDVDMWILTEGVIAEASQALLENDPQAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSC ETEALSILEQDEALQKIDSDQKQKEVEEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENR ASNNTKDNDAFKVEQTEAANSEILKNKALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDN KDEQENAENVDIVSKTSTNEQGQTTDEIRKEEDGPCDLSETVLTTRRSENMIDEDNVQTYGNDT VEASNSIHQVKEEPDAGTEHNSSQMISECSGENETHVQDRDVDMWILTEGVIAEASQALLENDP QAAQDTIEKDDTTKSSEPISDHDSRQHCDVEALQQQSCETEALSILEQDEALQKIDSDQKQKEV EEIESQNDELQVDEQKHEDKRDDLAKEPLVEYQNFENRASNNTKDNDAFKVEQTEAANSEILKN KALHISKESTPSIMAMKVENIKETSEGTEEDDAAKNDNKDEQENAENVDIVSKTSTNEQGQTTD EIRKEE(-) MNKAKQLMKLEKKRTVHVICLKLF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d015138_circ_g.20

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