Plant Circular RNA Database

Detail information of Zm00001d008954_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d008954_circ_g.1
					
						ID in PlantcircBase
						zma_circ_009575
					
						Alias
						Zm08circ00015, zma_circ_0002680, GRMZM2G154221_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr8: 26895941-26902038  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d008954						
					
						Parent gene annotation
						
							Ectonucleotide pyrophosphatase/phosphodiesterase family member 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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
						Zm00001d008954_T003:6
Zm00001d008954_T005:5
Zm00001d008954_T007:6
Zm00001d008954_T002:7
Zm00001d008954_T006:6
Zm00001d008954_T008:4
Zm00001d008954_T001:6
Zm00001d008954_T004:6

General Information
CircRNA Name	Zm00001d008954_circ_g.1
ID in PlantcircBase	zma_circ_009575
Alias	Zm08circ00015, zma_circ_0002680, GRMZM2G154221_C1
Organism	Zea mays
Position	chr8: 26895941-26902038 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d008954
Parent gene annotation	Ectonucleotide pyrophosphatase/phosphodiesterase family member 3
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm, 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	Zm00001d008954_T003:6 Zm00001d008954_T005:5 Zm00001d008954_T007:6 Zm00001d008954_T002:7 Zm00001d008954_T006:6 Zm00001d008954_T008:4 Zm00001d008954_T001:6 Zm00001d008954_T004:6

			
						 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  
						
							AAGGGCTGAAGGCAATAGCAAGCAAACTCACCTGAGAATCCTTCATTGGAGCTTAATCATAAAA
AGAACTAGCTGTAGGAGGCTAGGAGCAATACTTTTCctcccaaactcgtcaaatccgccgttag
atcagagaggctgaagttccagagctgccccaaggatctaatggagtctctcgacgagccatct
ggtcctaa

						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: 994
Transcript exons: 26895941-26896245,26897952-26898117,26900354-26900536,26
900952-26901057,26901140-26901304,26901970-26902038
CTCCCAAACTCGTCAAATCCGCCGTTAGATCAGAGAGGCTGAAGTTCCAGAGCTGCCCCAAGGA
TCTAATGGAGTCTCTCGACGAGCCATCTGGTCCTAATTGCAGAGGTCCATTCCCTACGTCAGAT
CCGAATGTCGAGTCTAGGCCTGGCACGTCCATGGCCATGCCTGGGATCTCCGGCGGCATAAATG
GAGCATGGTTGCTTGAAGCCGCTGATGAGGGGCTCACGGCCATCTCGGATGACATGACGCTGCC
GGTAGCACCAGCATGTGGTGCTTCGGGCGCTCCGTTGTCCACAACCATGTCATTTCCAGAGTTC
ATGCGCATCGGATGATAACCACCTGGTGCAGGTATTCCATTGACCACATGACCATTGGACAGAC
CACAGGCCATTGGGTCCATGTGAGGCTGGCCGGGAGCCGGCATGATAGGCTGCGGAAGTACTGG
ATACCCCATTGGTAAATTGCTAACTGGCATATGATGAATTCCATTTTGTATTGGAGCCAATGGA
ACATTTGGAGGTGCTGGATATTTCATCAAATTGTACTGGTGTTGCAATAAATGATTGAACAAGA
TGATTTGCCGTTTCAATTTCAACCGGATATAGTAAGCCCTAAAGAACTCGGAGTTCTCTTCTTC
GAGTTTCTGCCATACTAAAGTAGTGAAGCCAGGTTCTATTCTAGCACGAGTAGAAAGAGTTCTA
ACAACTTCTCCTTTGTTCATGTATAGCTGAAGACAACGCTCTATTAAATTCTGAACAAGTTCAA
TGTCTTCGCGAGACACCTTCTTACTGTCATTACTAGCTATAGACAAGGAACCCGAATTTCCTGC
AGGAGCATCAGTGGTCATCGGGTTTGGTTGCTGACTTTGCACTTCATTAGTACCCTGTGCTGAT
GACTGCAACTCTGTTGTGCTCTGAATATCCTGAGAATCCTTCATTGGAGCTTAATCATAAAAAG
AACTAGCTGTAGGAGGCTAGGAGCAATACTTTTC
						
						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	AAGGGCTGAAGGCAATAGCAAGCAAACTCACCTGAGAATCCTTCATTGGAGCTTAATCATAAAA AGAACTAGCTGTAGGAGGCTAGGAGCAATACTTTTCctcccaaactcgtcaaatccgccgttag atcagagaggctgaagttccagagctgccccaaggatctaatggagtctctcgacgagccatct ggtcctaa
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: 994 Transcript exons: 26895941-26896245,26897952-26898117,26900354-26900536,26 900952-26901057,26901140-26901304,26901970-26902038 CTCCCAAACTCGTCAAATCCGCCGTTAGATCAGAGAGGCTGAAGTTCCAGAGCTGCCCCAAGGA TCTAATGGAGTCTCTCGACGAGCCATCTGGTCCTAATTGCAGAGGTCCATTCCCTACGTCAGAT CCGAATGTCGAGTCTAGGCCTGGCACGTCCATGGCCATGCCTGGGATCTCCGGCGGCATAAATG GAGCATGGTTGCTTGAAGCCGCTGATGAGGGGCTCACGGCCATCTCGGATGACATGACGCTGCC GGTAGCACCAGCATGTGGTGCTTCGGGCGCTCCGTTGTCCACAACCATGTCATTTCCAGAGTTC ATGCGCATCGGATGATAACCACCTGGTGCAGGTATTCCATTGACCACATGACCATTGGACAGAC CACAGGCCATTGGGTCCATGTGAGGCTGGCCGGGAGCCGGCATGATAGGCTGCGGAAGTACTGG ATACCCCATTGGTAAATTGCTAACTGGCATATGATGAATTCCATTTTGTATTGGAGCCAATGGA ACATTTGGAGGTGCTGGATATTTCATCAAATTGTACTGGTGTTGCAATAAATGATTGAACAAGA TGATTTGCCGTTTCAATTTCAACCGGATATAGTAAGCCCTAAAGAACTCGGAGTTCTCTTCTTC GAGTTTCTGCCATACTAAAGTAGTGAAGCCAGGTTCTATTCTAGCACGAGTAGAAAGAGTTCTA ACAACTTCTCCTTTGTTCATGTATAGCTGAAGACAACGCTCTATTAAATTCTGAACAAGTTCAA TGTCTTCGCGAGACACCTTCTTACTGTCATTACTAGCTATAGACAAGGAACCCGAATTTCCTGC AGGAGCATCAGTGGTCATCGGGTTTGGTTGCTGACTTTGCACTTCATTAGTACCCTGTGCTGAT GACTGCAACTCTGTTGTGCTCTGAATATCCTGAGAATCCTTCATTGGAGCTTAATCATAAAAAG AACTAGCTGTAGGAGGCTAGGAGCAATACTTTTC
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
						0.142445289

Conservation Information
Conserved circRNAs	NA
PMCS	0.142445289

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26901986-26902009(-)
						
						Potential amino acid sequence
						
							MKDSQDIQSTTELQSSAQGTNEVQSQQPNPMTTDAPAGNSGSLSIASNDSKKVSREDIELVQNL
IERCLQLYMNKGEVVRTLSTRARIEPGFTTLVWQKLEEENSEFFRAYYIRLKLKRQIILFNHLL
QHQYNLMKYPAPPNVPLAPIQNGIHHMPVSNLPMGYPVLPQPIMPAPGQPHMDPMACGLSNGHV
VNGIPAPGGYHPMRMNSGNDMVVDNGAPEAPHAGATGSVMSSEMAVSPSSAASSNHAPFMPPEI
PGMAMDVPGLDSTFGSDVGNGPLQLGPDGSSRDSIRSLGQLWNFSLSDLTADLTSLGGKVLLLA
SYS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	26901986-26902009(-)
Potential amino acid sequence	MKDSQDIQSTTELQSSAQGTNEVQSQQPNPMTTDAPAGNSGSLSIASNDSKKVSREDIELVQNL IERCLQLYMNKGEVVRTLSTRARIEPGFTTLVWQKLEEENSEFFRAYYIRLKLKRQIILFNHLL QHQYNLMKYPAPPNVPLAPIQNGIHHMPVSNLPMGYPVLPQPIMPAPGQPHMDPMACGLSNGHV VNGIPAPGGYHPMRMNSGNDMVVDNGAPEAPHAGATGSVMSSEMAVSPSSAASSNHAPFMPPEI PGMAMDVPGLDSTFGSDVGNGPLQLGPDGSSRDSIRSLGQLWNFSLSDLTADLTSLGGKVLLLA SYS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d008954_circ_g.1

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