Plant Circular RNA Database

Detail information of Zm00001d041889_circ_g.10

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d041889_circ_g.10
					

						ID in PlantcircBase
						zma_circ_004227
					

						Alias
						ovule_test_circ_003797
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 142438014-142439043  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d041889						
					

						Parent gene annotation
						
							protein_coding
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d041889_circ_g.1 Zm00001d041889_circ_g.2 Zm00001d041889_circ_g.3 Zm00001d041889_circ_g.4 Zm00001d041889_circ_g.5 Zm00001d041889_circ_g.6 Zm00001d041889_circ_g.7 Zm00001d041889_circ_g.8 Zm00001d041889_circ_g.9 Zm00001d041889_circ_g.11 Zm00001d041889_circ_g.12 Zm00001d041889_circ_g.13 Zm00001d041889_circ_g.14 Zm00001d041889_circ_g.15 Zm00001d041889_circ_g.16 Zm00001d041889_circ_g.17 Zm00001d041889_circ_g.18 Zm00001d041889_circ_g.19 						
					

						Support reads
						NA
					

						Tissues
						ovule
					

						Exon boundary  
						
							No-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-AA							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
						Zm00001d041889_T035:4
Zm00001d041889_T117:4
Zm00001d041889_T086:3
Zm00001d041889_T029:2
Zm00001d041889_T068:3
Zm00001d041889_T022:4
Zm00001d041889_T103:4
Zm00001d041889_T114:3
Zm00001d041889_T087:4
Zm00001d041889_T045:2
Zm00001d041889_T005:4
Zm00001d041889_T027:4
Zm00001d041889_T083:4
Zm00001d041889_T034:3
Zm00001d041889_T135:4
Zm00001d041889_T082:3
Zm00001d041889_T073:3
Zm00001d041889_T016:4
Zm00001d041889_T001:4
Zm00001d041889_T018:4
Zm00001d041889_T090:4
Zm00001d041889_T070:4
Zm00001d041889_T031:2
Zm00001d041889_T054:4
Zm00001d041889_T094:4
Zm00001d041889_T002:4
Zm00001d041889_T139:4
Zm00001d041889_T089:4
Zm00001d041889_T047:3
Zm00001d041889_T097:4
Zm00001d041889_T048:4
Zm00001d041889_T041:4
Zm00001d041889_T042:4
Zm00001d041889_T039:2
Zm00001d041889_T092:4
Zm00001d041889_T115:3
Zm00001d041889_T101:2
Zm00001d041889_T059:4
Zm00001d041889_T019:4
Zm00001d041889_T145:4
Zm00001d041889_T113:4
Zm00001d041889_T021:3
Zm00001d041889_T134:4
Zm00001d041889_T140:2
Zm00001d041889_T079:4
Zm00001d041889_T033:4
Zm00001d041889_T003:4
Zm00001d041889_T137:4
Zm00001d041889_T064:4
Zm00001d041889_T102:2
Zm00001d041889_T099:2
Zm00001d041889_T108:4
Zm00001d041889_T107:3
Zm00001d041889_T010:2
Zm00001d041889_T131:4
Zm00001d041889_T036:4
Zm00001d041889_T116:2
Zm00001d041889_T081:4
Zm00001d041889_T007:4
Zm00001d041889_T065:4
Zm00001d041889_T106:4
Zm00001d041889_T129:4
Zm00001d041889_T146:1
Zm00001d041889_T049:4
Zm00001d041889_T085:2
Zm00001d041889_T096:4
Zm00001d041889_T061:4
Zm00001d041889_T144:3
Zm00001d041889_T062:4
Zm00001d041889_T057:4
Zm00001d041889_T077:3
Zm00001d041889_T012:4
Zm00001d041889_T142:3
Zm00001d041889_T075:2
Zm00001d041889_T025:4
Zm00001d041889_T132:4
Zm00001d041889_T143:3
Zm00001d041889_T051:4
Zm00001d041889_T138:5
Zm00001d041889_T066:4
Zm00001d041889_T141:4
Zm00001d041889_T147:1
Zm00001d041889_T136:4
Zm00001d041889_T014:4

					

			
		

General Information
CircRNA Name	Zm00001d041889_circ_g.10
ID in PlantcircBase	zma_circ_004227
Alias	ovule_test_circ_003797
Organism	Zea mays
Position	chr3: 142438014-142439043 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d041889
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d041889_circ_g.1 Zm00001d041889_circ_g.2 Zm00001d041889_circ_g.3 Zm00001d041889_circ_g.4 Zm00001d041889_circ_g.5 Zm00001d041889_circ_g.6 Zm00001d041889_circ_g.7 Zm00001d041889_circ_g.8 Zm00001d041889_circ_g.9 Zm00001d041889_circ_g.11 Zm00001d041889_circ_g.12 Zm00001d041889_circ_g.13 Zm00001d041889_circ_g.14 Zm00001d041889_circ_g.15 Zm00001d041889_circ_g.16 Zm00001d041889_circ_g.17 Zm00001d041889_circ_g.18 Zm00001d041889_circ_g.19
Support reads	NA
Tissues	ovule
Exon boundary	No-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-AA 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	Zm00001d041889_T035:4 Zm00001d041889_T117:4 Zm00001d041889_T086:3 Zm00001d041889_T029:2 Zm00001d041889_T068:3 Zm00001d041889_T022:4 Zm00001d041889_T103:4 Zm00001d041889_T114:3 Zm00001d041889_T087:4 Zm00001d041889_T045:2 Zm00001d041889_T005:4 Zm00001d041889_T027:4 Zm00001d041889_T083:4 Zm00001d041889_T034:3 Zm00001d041889_T135:4 Zm00001d041889_T082:3 Zm00001d041889_T073:3 Zm00001d041889_T016:4 Zm00001d041889_T001:4 Zm00001d041889_T018:4 Zm00001d041889_T090:4 Zm00001d041889_T070:4 Zm00001d041889_T031:2 Zm00001d041889_T054:4 Zm00001d041889_T094:4 Zm00001d041889_T002:4 Zm00001d041889_T139:4 Zm00001d041889_T089:4 Zm00001d041889_T047:3 Zm00001d041889_T097:4 Zm00001d041889_T048:4 Zm00001d041889_T041:4 Zm00001d041889_T042:4 Zm00001d041889_T039:2 Zm00001d041889_T092:4 Zm00001d041889_T115:3 Zm00001d041889_T101:2 Zm00001d041889_T059:4 Zm00001d041889_T019:4 Zm00001d041889_T145:4 Zm00001d041889_T113:4 Zm00001d041889_T021:3 Zm00001d041889_T134:4 Zm00001d041889_T140:2 Zm00001d041889_T079:4 Zm00001d041889_T033:4 Zm00001d041889_T003:4 Zm00001d041889_T137:4 Zm00001d041889_T064:4 Zm00001d041889_T102:2 Zm00001d041889_T099:2 Zm00001d041889_T108:4 Zm00001d041889_T107:3 Zm00001d041889_T010:2 Zm00001d041889_T131:4 Zm00001d041889_T036:4 Zm00001d041889_T116:2 Zm00001d041889_T081:4 Zm00001d041889_T007:4 Zm00001d041889_T065:4 Zm00001d041889_T106:4 Zm00001d041889_T129:4 Zm00001d041889_T146:1 Zm00001d041889_T049:4 Zm00001d041889_T085:2 Zm00001d041889_T096:4 Zm00001d041889_T061:4 Zm00001d041889_T144:3 Zm00001d041889_T062:4 Zm00001d041889_T057:4 Zm00001d041889_T077:3 Zm00001d041889_T012:4 Zm00001d041889_T142:3 Zm00001d041889_T075:2 Zm00001d041889_T025:4 Zm00001d041889_T132:4 Zm00001d041889_T143:3 Zm00001d041889_T051:4 Zm00001d041889_T138:5 Zm00001d041889_T066:4 Zm00001d041889_T141:4 Zm00001d041889_T147:1 Zm00001d041889_T136:4 Zm00001d041889_T014:4

			
						 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  
						
							GAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGC
ATGATAATGACAGAATAGCTGAAGAGACTGATAAAGgagcatgaagaaaaatatgcagttagcc
ctatagccgttgaaaagagcttccgtcaggaagcaagtgcaattgaatctgcaggaaaacccct
aactgtca

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							GAGCATGAAGAAAAATATGCAGTTAGCCCTATAGCCGTTGAAAAGAGCTTCCGTCAGGAAGCAA
GTGCAATTGAATCTGCAGGAAAACCCCTAACTGTCATCTTTTCTAACGATCTCCACACCAAACA
TCTGCAACATGATTGTGATGTGCTAATTAAGGAGACTGGTGAAGGTAATATTGCATTAATACTT
GTTCCACAACTTGTTACTGATCTGCGGAGATGGTGATGAAAACTTGTGCTGTTTGCACTGTGTT
GACATTTTTTAAATGTATTCTTTCCCTTTCTCAGAAGTTTTAGCTCAGGAGAATTGTAATGACC
AGCCTGTTCCTGCCCAGACCGACCTAGAAATTAAGTTAAATGATGAACTTGCTGATCCGGGTAT
GGACCGTGTTTAATTTACCAATTTTAAACATACCGAGTTCTAAGTCAAGTTGTTGGCTACTTGT
AATTCTAATTGTTTTTAATAGGCTTTATATTTATTCTATCTGCAAAAGCTAGGCATATGTTTCA
TTGTCATTTGATGTCTTTTAAGTATCTGACATTTATTTTTTAAATGTATTCTTTCCCTTTATCA
GATGTTTTAGCTCAGGAGAATTGTAATGACCAGCCTGTTCCTGCCAACGAGCCTGAGGAAAAGA
ACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGCATGATAATGACAGAAT
AGCTGAAGAGACTGATAAAGGTACAACCGAATTAATCCTGCCCAGACTGACCTAGAAATTAAGT
TAAACGATGAACTTGCTGATCCGGGTATGGACTGTGTTTAATTTACCAATTTTAAACATACTGC
AGAGTTTTGGTTTATCAATTAGTTTCACTGTTGCAGACCATGAAGAGCAAAGCAATGTGTTCGG
AGAACGGAGAGTTAGCTTGGAAGCAAATGCCAACGAGCCTGAGGAAAAGAACCTAGCTAACGTC
ATATCAACTGATCTCCACACCAAAACTCTGCAGCATGATAATGACAGAATAGCTGAAGAGACTG
ATAAAG

Sequences
Splice junction sequence	GAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGC ATGATAATGACAGAATAGCTGAAGAGACTGATAAAGgagcatgaagaaaaatatgcagttagcc ctatagccgttgaaaagagcttccgtcaggaagcaagtgcaattgaatctgcaggaaaacccct aactgtca
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GAGCATGAAGAAAAATATGCAGTTAGCCCTATAGCCGTTGAAAAGAGCTTCCGTCAGGAAGCAA GTGCAATTGAATCTGCAGGAAAACCCCTAACTGTCATCTTTTCTAACGATCTCCACACCAAACA TCTGCAACATGATTGTGATGTGCTAATTAAGGAGACTGGTGAAGGTAATATTGCATTAATACTT GTTCCACAACTTGTTACTGATCTGCGGAGATGGTGATGAAAACTTGTGCTGTTTGCACTGTGTT GACATTTTTTAAATGTATTCTTTCCCTTTCTCAGAAGTTTTAGCTCAGGAGAATTGTAATGACC AGCCTGTTCCTGCCCAGACCGACCTAGAAATTAAGTTAAATGATGAACTTGCTGATCCGGGTAT GGACCGTGTTTAATTTACCAATTTTAAACATACCGAGTTCTAAGTCAAGTTGTTGGCTACTTGT AATTCTAATTGTTTTTAATAGGCTTTATATTTATTCTATCTGCAAAAGCTAGGCATATGTTTCA TTGTCATTTGATGTCTTTTAAGTATCTGACATTTATTTTTTAAATGTATTCTTTCCCTTTATCA GATGTTTTAGCTCAGGAGAATTGTAATGACCAGCCTGTTCCTGCCAACGAGCCTGAGGAAAAGA ACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGCATGATAATGACAGAAT AGCTGAAGAGACTGATAAAGGTACAACCGAATTAATCCTGCCCAGACTGACCTAGAAATTAAGT TAAACGATGAACTTGCTGATCCGGGTATGGACTGTGTTTAATTTACCAATTTTAAACATACTGC AGAGTTTTGGTTTATCAATTAGTTTCACTGTTGCAGACCATGAAGAGCAAAGCAATGTGTTCGG AGAACGGAGAGTTAGCTTGGAAGCAAATGCCAACGAGCCTGAGGAAAAGAACCTAGCTAACGTC ATATCAACTGATCTCCACACCAAAACTCTGCAGCATGATAATGACAGAATAGCTGAAGAGACTG ATAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.075605005

Conservation Information
Conserved circRNAs	NA
PMCS	0.075605005

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tang et al., 2018

circRNA

Detail information of Zm00001d041889_circ_g.10

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