Plant Circular RNA Database

Detail information of Zm00001d017872_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d017872_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002134
					
						Alias
						circ992
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 209277368-209278784  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d017872						
					
						Parent gene annotation
						
							Transducin/WD40 repeat-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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  
						
							CT-TA							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
						Zm00001d017872_T006:4
Zm00001d017872_T018:3
Zm00001d017872_T008:3
Zm00001d017872_T028:4
Zm00001d017872_T002:4
Zm00001d017872_T010:3
Zm00001d017872_T022:3
Zm00001d017872_T020:4
Zm00001d017872_T027:3
Zm00001d017872_T023:3
Zm00001d017872_T021:4
Zm00001d017872_T007:4
Zm00001d017872_T025:4
Zm00001d017872_T015:3
Zm00001d017872_T009:4
Zm00001d017872_T005:4
Zm00001d017872_T013:2
Zm00001d017872_T001:4
Zm00001d017872_T003:4
Zm00001d017872_T014:4
Zm00001d017872_T011:3
Zm00001d017872_T019:4
Zm00001d017872_T016:1
Zm00001d017872_T017:4
Zm00001d017872_T026:4
Zm00001d017872_T012:4
Zm00001d017872_T004:4
Zm00001d017872_T029:4
Zm00001d017872_T024:4

General Information
CircRNA Name	Zm00001d017872_circ_g.1
ID in PlantcircBase	zma_circ_002134
Alias	circ992
Organism	Zea mays
Position	chr5: 209277368-209278784 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d017872
Parent gene annotation	Transducin/WD40 repeat-like superfamily protein
Parent gene strand	-
Alternative splicing	NA
Support reads	4
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	CT-TA 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	Zm00001d017872_T006:4 Zm00001d017872_T018:3 Zm00001d017872_T008:3 Zm00001d017872_T028:4 Zm00001d017872_T002:4 Zm00001d017872_T010:3 Zm00001d017872_T022:3 Zm00001d017872_T020:4 Zm00001d017872_T027:3 Zm00001d017872_T023:3 Zm00001d017872_T021:4 Zm00001d017872_T007:4 Zm00001d017872_T025:4 Zm00001d017872_T015:3 Zm00001d017872_T009:4 Zm00001d017872_T005:4 Zm00001d017872_T013:2 Zm00001d017872_T001:4 Zm00001d017872_T003:4 Zm00001d017872_T014:4 Zm00001d017872_T011:3 Zm00001d017872_T019:4 Zm00001d017872_T016:1 Zm00001d017872_T017:4 Zm00001d017872_T026:4 Zm00001d017872_T012:4 Zm00001d017872_T004:4 Zm00001d017872_T029:4 Zm00001d017872_T024:4

			
						 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  
						
							TGTATTTTTTACGGGTTATGTTTATCTGCTCCCAGGGTATTCCTTGAATGTCCCTTCCTTTTCT
TGCATCTGCTGATGAAGTATCTGGGATCTTATCATTctttacagatcagctctccttgaaaccc
accagctaccagtaaattgtccttgactgtcaaggtactaacttgagtctgataaaacccctct
aataaact

						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
						
							CTTTACAGATCAGCTCTCCTTGAAACCCACCAGCTACCAGTAAATTGTCCTTGACTGTCAAGGT
ACTAACTTGAGTCTGATAAAACCCCTCTAATAAACTTCCTGCATGCTTCTGTACAACAATGCCT
GTCATCAGTATAAGTTGAATAACAAGAGAGGATGGGAAGACAACACACAACATGAAAGAAAATG
TTATTGTACCTCCCTTGGTGCCACATGTCCTTGGACGTTGATAAGTTCAGTATCCACACCACTC
AATGCTGACCAGTGACGAATTGAGTAATGAGATACTAGGTAGATGTCGTGCTTGGACGTTGCCC
ATACCAAATTTCTAAGCTGCAGGCACAAATCAGATTCTTTGTTTCATATTACAGTATTATACCA
AAACCATATAAAAGAGAGGGCAACATTGAACAAAAGTTCAAGACCATCTCAATAGGTTAGTTAA
AATGCACGGAAATCTAAGTTTACTTTTGAAAAGCAAACATAGGCAGAACTGTGTAATTGGACCA
TGAAGATAGCCCTGGTCCCTGAATATAATGAACTATTATGTCAGTATAATATCTCCAAAAAGAT
GGAGTTGAATTAATACTGAAGGTACCACAACCCTCCACACATTTAACAGGTATACCATGTGCTT
CCGTCACTATGCATGGCTTGCATGCAAAGCTTGAGTATTTTTTGCATAACTCAGTATACATCGA
AGAAACCAACACCAGTGTGTTGTTGTTCCAATGTACATGCAGCTTCCTCTCAGAATCAATAGTT
AGTTCGCAATCACAAATATCAAGTTGAGTGAAATAGACCAGCAGCTAAGTCACAATTGAGATAA
TCTTGTAATGTATTGTCATATGCTGATATTCATGAAGAAATTGCTCAGCGGATTTATTACAAAA
AAATAATAATAACTCCAAGAGACAAAGTGACTATAAGTACAAAATTAGTTTATGAAATTTATAG
CATACTCCTGTGAGGGAATGTCCAGAAAATTAGTGTGCTCTATCAACAAAATAACTAAACTCAT
AATTACCATGTATCATAATCTATCAAAGGATTAAGAATACACAAAGGAAGTTAACTCACCTGAA
AATGTAGAATAGTTGATTTAACCGATCTAGTATTTCGTCTAAACTCATAGTATATCCCACCTTT
CTCTGTTGGTTTGCAATCCTATTCCAAGGCAAGTGTCAAACACATGCGGATAGAAAATTTTACA
AAGCCAAACTTCCAACAGGAGTAAGAGGCAAACCTTCATAGCTTCTTCTCCAGAGTTAGGTACA
TTCTCATAATTTTTGTACTGTTCTAATCTGGACTGTCTGTATTTTTTACGGGTTATGTTTATCT
GCTCCCAGGGTATTCCTTGAATGTCCCTTCCTTTTCTTGCATCTGCTGATGAAGTATCTGGGAT
CTTATCATT

Sequences
Splice junction sequence	TGTATTTTTTACGGGTTATGTTTATCTGCTCCCAGGGTATTCCTTGAATGTCCCTTCCTTTTCT TGCATCTGCTGATGAAGTATCTGGGATCTTATCATTctttacagatcagctctccttgaaaccc accagctaccagtaaattgtccttgactgtcaaggtactaacttgagtctgataaaacccctct aataaact
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	CTTTACAGATCAGCTCTCCTTGAAACCCACCAGCTACCAGTAAATTGTCCTTGACTGTCAAGGT ACTAACTTGAGTCTGATAAAACCCCTCTAATAAACTTCCTGCATGCTTCTGTACAACAATGCCT GTCATCAGTATAAGTTGAATAACAAGAGAGGATGGGAAGACAACACACAACATGAAAGAAAATG TTATTGTACCTCCCTTGGTGCCACATGTCCTTGGACGTTGATAAGTTCAGTATCCACACCACTC AATGCTGACCAGTGACGAATTGAGTAATGAGATACTAGGTAGATGTCGTGCTTGGACGTTGCCC ATACCAAATTTCTAAGCTGCAGGCACAAATCAGATTCTTTGTTTCATATTACAGTATTATACCA AAACCATATAAAAGAGAGGGCAACATTGAACAAAAGTTCAAGACCATCTCAATAGGTTAGTTAA AATGCACGGAAATCTAAGTTTACTTTTGAAAAGCAAACATAGGCAGAACTGTGTAATTGGACCA TGAAGATAGCCCTGGTCCCTGAATATAATGAACTATTATGTCAGTATAATATCTCCAAAAAGAT GGAGTTGAATTAATACTGAAGGTACCACAACCCTCCACACATTTAACAGGTATACCATGTGCTT CCGTCACTATGCATGGCTTGCATGCAAAGCTTGAGTATTTTTTGCATAACTCAGTATACATCGA AGAAACCAACACCAGTGTGTTGTTGTTCCAATGTACATGCAGCTTCCTCTCAGAATCAATAGTT AGTTCGCAATCACAAATATCAAGTTGAGTGAAATAGACCAGCAGCTAAGTCACAATTGAGATAA TCTTGTAATGTATTGTCATATGCTGATATTCATGAAGAAATTGCTCAGCGGATTTATTACAAAA AAATAATAATAACTCCAAGAGACAAAGTGACTATAAGTACAAAATTAGTTTATGAAATTTATAG CATACTCCTGTGAGGGAATGTCCAGAAAATTAGTGTGCTCTATCAACAAAATAACTAAACTCAT AATTACCATGTATCATAATCTATCAAAGGATTAAGAATACACAAAGGAAGTTAACTCACCTGAA AATGTAGAATAGTTGATTTAACCGATCTAGTATTTCGTCTAAACTCATAGTATATCCCACCTTT CTCTGTTGGTTTGCAATCCTATTCCAAGGCAAGTGTCAAACACATGCGGATAGAAAATTTTACA AAGCCAAACTTCCAACAGGAGTAAGAGGCAAACCTTCATAGCTTCTTCTCCAGAGTTAGGTACA TTCTCATAATTTTTGTACTGTTCTAATCTGGACTGTCTGTATTTTTTACGGGTTATGTTTATCT GCTCCCAGGGTATTCCTTGAATGTCCCTTCCTTTTCTTGCATCTGCTGATGAAGTATCTGGGAT CTTATCATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.141393037

Conservation Information
Conserved circRNAs	NA
PMCS	0.141393037

			
						 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 Zm00001d017872_circ_g.1

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