Plant Circular RNA Database

Detail information of Zm00001d024612_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d024612_circ_g.1
					
						ID in PlantcircBase
						zma_circ_003155
					
						Alias
						circ329
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 80321762-80322699  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d024612						
					
						Parent gene annotation
						
							Ras-related protein RABH1b
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						5
					
						Tissues
						seedling leaves
					
						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-CA							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
						Zm00001d024612_T010:3
Zm00001d024612_T063:2
Zm00001d024612_T006:3
Zm00001d024612_T036:4
Zm00001d024612_T015:3
Zm00001d024612_T023:4
Zm00001d024612_T004:3
Zm00001d024612_T052:4
Zm00001d024612_T034:4
Zm00001d024612_T059:4
Zm00001d024612_T016:4
Zm00001d024612_T018:4
Zm00001d024612_T045:4
Zm00001d024612_T005:2
Zm00001d024612_T038:2
Zm00001d024612_T013:3
Zm00001d024612_T047:4
Zm00001d024612_T041:2
Zm00001d024612_T002:3
Zm00001d024612_T011:3
Zm00001d024612_T054:2
Zm00001d024612_T009:3
Zm00001d024612_T053:4
Zm00001d024612_T014:4
Zm00001d024612_T007:3
Zm00001d024612_T058:4
Zm00001d024612_T066:1
Zm00001d024612_T064:1
Zm00001d024612_T022:4
Zm00001d024612_T031:4
Zm00001d024612_T029:4
Zm00001d024612_T024:2
Zm00001d024612_T012:4
Zm00001d024612_T021:2
Zm00001d024612_T042:4
Zm00001d024612_T020:4
Zm00001d024612_T008:3
Zm00001d024612_T051:3
Zm00001d024612_T019:4
Zm00001d024612_T039:4
Zm00001d024612_T003:3
Zm00001d024612_T044:3
Zm00001d024612_T017:4
Zm00001d024612_T055:4
Zm00001d024612_T062:3

General Information
CircRNA Name	Zm00001d024612_circ_g.1
ID in PlantcircBase	zma_circ_003155
Alias	circ329
Organism	Zea mays
Position	chr10: 80321762-80322699 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d024612
Parent gene annotation	Ras-related protein RABH1b
Parent gene strand	+
Alternative splicing	NA
Support reads	5
Tissues	seedling leaves
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-CA 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	Zm00001d024612_T010:3 Zm00001d024612_T063:2 Zm00001d024612_T006:3 Zm00001d024612_T036:4 Zm00001d024612_T015:3 Zm00001d024612_T023:4 Zm00001d024612_T004:3 Zm00001d024612_T052:4 Zm00001d024612_T034:4 Zm00001d024612_T059:4 Zm00001d024612_T016:4 Zm00001d024612_T018:4 Zm00001d024612_T045:4 Zm00001d024612_T005:2 Zm00001d024612_T038:2 Zm00001d024612_T013:3 Zm00001d024612_T047:4 Zm00001d024612_T041:2 Zm00001d024612_T002:3 Zm00001d024612_T011:3 Zm00001d024612_T054:2 Zm00001d024612_T009:3 Zm00001d024612_T053:4 Zm00001d024612_T014:4 Zm00001d024612_T007:3 Zm00001d024612_T058:4 Zm00001d024612_T066:1 Zm00001d024612_T064:1 Zm00001d024612_T022:4 Zm00001d024612_T031:4 Zm00001d024612_T029:4 Zm00001d024612_T024:2 Zm00001d024612_T012:4 Zm00001d024612_T021:2 Zm00001d024612_T042:4 Zm00001d024612_T020:4 Zm00001d024612_T008:3 Zm00001d024612_T051:3 Zm00001d024612_T019:4 Zm00001d024612_T039:4 Zm00001d024612_T003:3 Zm00001d024612_T044:3 Zm00001d024612_T017:4 Zm00001d024612_T055:4 Zm00001d024612_T062:3

			
						 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  
						
							TGTCACCAGGAAAGTGTCCACCGACGAAGGAGAAGCCAAAGCACAGGAGCATGGTGCTATGTTC
ATGGAGACCAGTGCAAAAGCTGGGTTCAACGTCAAGgcattagcagatgaagaggcggaatgtt
cttcttgggatagcgacgatgagtaccagaaattcatccaaaatatgaaccctccaaggtatac
taaccact

						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
						
							GCATTAGCAGATGAAGAGGCGGAATGTTCTTCTTGGGATAGCGACGATGAGTACCAGAAATTCA
TCCAAAATATGAACCCTCCAAGGTATACTAACCACTTCTTCAACAATTTCCTTGTTTCAGAAAA
AATCAATTCCTTCCTTAACCTCTATCGATGTTCAGGGTCACCATCGACAACACCTCATGTCCAA
GTGCTATAGTTATTCATGTGAGTCCCTCAAAAATTAGATGCTTTCTCATTGGCGTGTTTTCCTT
GTTTGTGCCTAAAGTTGAAGCTAGCATAGTTTTTGTTTGAACATCACCAACAAGTATGGCATAC
TGTTGGAGGTAGTGCAGGTCCTCACTAACCTCAAGCTCATAGTCACGAAGGCATACATATCCTC
AGACGGAGGATGGTTCATGGATGGTAGGAGAGCCATTGGTTTCTTTCCTTTTCGTCAAAATGGT
GTGACAATTTCTAAGCTGACTTATTTATTTTCTTCATTGTTGGTGTATTCTTGCTGATCTTCTG
TTGTCCATTTTGTCGGAAGGTGATTACATCCAATCTCTTGCAACTGCGTTTTGTCGAAAGTTTA
GTCATGTGTTGTTGAATACATGAACTACTGAGAGGAACTAACTTAAAAATTACTCCATCATTTA
GTCCACCCGTTTAGATGGTTTAGGAGTAAACTTTTAGATCAGGTCCTTAACCATTCATTCTTTA
TATAAATAATATGATAACATCAGTTCCGTATTCCATCTCCAATACCCCATCTACTCGGTAAAAT
TATAACGAGTCACTCTTGCGATATAGTTTTTCAATGAACTTGACAGCTATCCTGATTTTTTGTT
CACTGATGTCACCAGGAAAGTGTCCACCGACGAAGGAGAAGCCAAAGCACAGGAGCATGGTGCT
ATGTTCATGGAGACCAGTGCAAAAGCTGGGTTCAACGTCAAG

Sequences
Splice junction sequence	TGTCACCAGGAAAGTGTCCACCGACGAAGGAGAAGCCAAAGCACAGGAGCATGGTGCTATGTTC ATGGAGACCAGTGCAAAAGCTGGGTTCAACGTCAAGgcattagcagatgaagaggcggaatgtt cttcttgggatagcgacgatgagtaccagaaattcatccaaaatatgaaccctccaaggtatac taaccact
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	GCATTAGCAGATGAAGAGGCGGAATGTTCTTCTTGGGATAGCGACGATGAGTACCAGAAATTCA TCCAAAATATGAACCCTCCAAGGTATACTAACCACTTCTTCAACAATTTCCTTGTTTCAGAAAA AATCAATTCCTTCCTTAACCTCTATCGATGTTCAGGGTCACCATCGACAACACCTCATGTCCAA GTGCTATAGTTATTCATGTGAGTCCCTCAAAAATTAGATGCTTTCTCATTGGCGTGTTTTCCTT GTTTGTGCCTAAAGTTGAAGCTAGCATAGTTTTTGTTTGAACATCACCAACAAGTATGGCATAC TGTTGGAGGTAGTGCAGGTCCTCACTAACCTCAAGCTCATAGTCACGAAGGCATACATATCCTC AGACGGAGGATGGTTCATGGATGGTAGGAGAGCCATTGGTTTCTTTCCTTTTCGTCAAAATGGT GTGACAATTTCTAAGCTGACTTATTTATTTTCTTCATTGTTGGTGTATTCTTGCTGATCTTCTG TTGTCCATTTTGTCGGAAGGTGATTACATCCAATCTCTTGCAACTGCGTTTTGTCGAAAGTTTA GTCATGTGTTGTTGAATACATGAACTACTGAGAGGAACTAACTTAAAAATTACTCCATCATTTA GTCCACCCGTTTAGATGGTTTAGGAGTAAACTTTTAGATCAGGTCCTTAACCATTCATTCTTTA TATAAATAATATGATAACATCAGTTCCGTATTCCATCTCCAATACCCCATCTACTCGGTAAAAT TATAACGAGTCACTCTTGCGATATAGTTTTTCAATGAACTTGACAGCTATCCTGATTTTTTGTT CACTGATGTCACCAGGAAAGTGTCCACCGACGAAGGAGAAGCCAAAGCACAGGAGCATGGTGCT ATGTTCATGGAGACCAGTGCAAAAGCTGGGTTCAACGTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.099501501

Conservation Information
Conserved circRNAs	NA
PMCS	0.099501501

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d024612_circ_g.1

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