Plant Circular RNA Database

Detail information of Zm00001d038750_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d038750_circ_g.1
					
						ID in PlantcircBase
						zma_circ_005320
					
						Alias
						pollen_test_circ_000916
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 163852611-163853922  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d038750						
					
						Parent gene annotation
						
							ALA-interacting subunit 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						pollen
					
						Exon boundary  
						
							No-No							"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-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
						Zm00001d038750_T005:6
Zm00001d038750_T006:6
Zm00001d038750_T003:7
Zm00001d038750_T004:7
Zm00001d038750_T002:7
Zm00001d038750_T001:7

General Information
CircRNA Name	Zm00001d038750_circ_g.1
ID in PlantcircBase	zma_circ_005320
Alias	pollen_test_circ_000916
Organism	Zea mays
Position	chr6: 163852611-163853922 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d038750
Parent gene annotation	ALA-interacting subunit 1
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	pollen
Exon boundary	No-No "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-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	Zm00001d038750_T005:6 Zm00001d038750_T006:6 Zm00001d038750_T003:7 Zm00001d038750_T004:7 Zm00001d038750_T002:7 Zm00001d038750_T001:7

			
						 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  
						
							GAACAAGGGCGACGCGAGCACGATCGCCAACTGCGAGCCCGAGGCCACCAGCGAGGACGGCGGC
AAGCCCATCGTGCCCTGCGGCCTCATCGCCTGGAGCcctgttctccccgcagcggacgaaccct
cctcgctcagtcctcgatcccggccggccggcagagatctcgccgccgtcgcgcgctctacctg
cgccccgc

						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
						
							CCTGTTCTCCCCGCAGCGGACGAACCCTCCTCGCTCAGTCCTCGATCCCGGCCGGCCGGCAGAG
ATCTCGCCGCCGTCGCGCGCTCTACCTGCGCCCCGCTGGTAATAATTGCAAAAGCTGCGTCCGG
TCAGGATTCAGGGAGGCGATGTGTGTGTGTGTGTGTCCTTGGATTGGATCATCGTGCTCGTGCA
TGCTTTGATCGCCGCCGGTTTGGTTGATTGCGCAGATGAGTTCCGAGAGCGACTCCTTGGCCTC
ACGGCGGTCCAAGAAACCCAAGTGTACGTACGCGCCTGCTGTCCTCCTCCTCCTCCGCATTGTT
CTTTCACTTTTGCTGTCGCTGTCATACGCCTTCCAAATTGTCTGTTGTATTCACGCGCGCTGCC
ATGTTTCTGCGACTGAATGAACTCGATCTCTCTTTGATGCATGTGAGCTGCAGATTCCAAGTTT
ACCCAGCAGGAGCTTCCAGCATGCAAGCCAATGTTAACTCCTGGAATCGTACGATCCAAAAATT
CTTTGCTCTACCCGTATATATATAAGCGCGCAGTTGCATCGCTCTCTCTCCTAACCTAGCTGCT
ATGCATCGCCTACTAGGTCATCGGTGCTTTCTCGCTCATCGGTGTCTTCTTCGTCCCGATCGGC
CTCGCTTCGCTATCCGCGTCTCATAACGTACGTATTATGCGATCGAAACCTCAATTCCAAAACT
ATGCGAGACGCGTGTGGTTACGTTCTAACGTATATATATACAGATCGTTGAGGTGATAGATCGA
TATGACGCCGAGTGTGTGTCCGCCAACGACAAGGTCGGCTTCATCCAGGACACCAAGACCGACA
AGGCGTGCACAAGAAAGATCACCGTGAGTATATACACCATGCATCGTCGTCGTCGTCGCGTCGC
CCCCCTAGCTGGCTTCTTCCTCTTTTGTCTTGCTAACGATCGATCTCGGTCTCACTGTGTAGTG
TAGCTTGCAAGAGCATTACATTTGGTAAGTAGCTAGTAATGATGGTTTGCGTACCATTGTTTCA
GGTGCCAAAGCCGATGAAAGGGCCGATACACATATACTACCAGCTCGAGAATTTCTATCAGAAC
CATCGACGGTACGGTGTGAACCCTAGCTAGAACTTGATTCTTTGTGACCGCATGGATTGTGAAT
GCTAACGACGACCGACCCCGGCCCCAGGTACGTGAAGAGCCGTAACGACATGCAGCTGCGGAAC
AAGGGCGACGCGAGCACGATCGCCAACTGCGAGCCCGAGGCCACCAGCGAGGACGGCGGCAAGC
CCATCGTGCCCTGCGGCCTCATCGCCTGGAGC

Sequences
Splice junction sequence	GAACAAGGGCGACGCGAGCACGATCGCCAACTGCGAGCCCGAGGCCACCAGCGAGGACGGCGGC AAGCCCATCGTGCCCTGCGGCCTCATCGCCTGGAGCcctgttctccccgcagcggacgaaccct cctcgctcagtcctcgatcccggccggccggcagagatctcgccgccgtcgcgcgctctacctg cgccccgc
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	CCTGTTCTCCCCGCAGCGGACGAACCCTCCTCGCTCAGTCCTCGATCCCGGCCGGCCGGCAGAG ATCTCGCCGCCGTCGCGCGCTCTACCTGCGCCCCGCTGGTAATAATTGCAAAAGCTGCGTCCGG TCAGGATTCAGGGAGGCGATGTGTGTGTGTGTGTGTCCTTGGATTGGATCATCGTGCTCGTGCA TGCTTTGATCGCCGCCGGTTTGGTTGATTGCGCAGATGAGTTCCGAGAGCGACTCCTTGGCCTC ACGGCGGTCCAAGAAACCCAAGTGTACGTACGCGCCTGCTGTCCTCCTCCTCCTCCGCATTGTT CTTTCACTTTTGCTGTCGCTGTCATACGCCTTCCAAATTGTCTGTTGTATTCACGCGCGCTGCC ATGTTTCTGCGACTGAATGAACTCGATCTCTCTTTGATGCATGTGAGCTGCAGATTCCAAGTTT ACCCAGCAGGAGCTTCCAGCATGCAAGCCAATGTTAACTCCTGGAATCGTACGATCCAAAAATT CTTTGCTCTACCCGTATATATATAAGCGCGCAGTTGCATCGCTCTCTCTCCTAACCTAGCTGCT ATGCATCGCCTACTAGGTCATCGGTGCTTTCTCGCTCATCGGTGTCTTCTTCGTCCCGATCGGC CTCGCTTCGCTATCCGCGTCTCATAACGTACGTATTATGCGATCGAAACCTCAATTCCAAAACT ATGCGAGACGCGTGTGGTTACGTTCTAACGTATATATATACAGATCGTTGAGGTGATAGATCGA TATGACGCCGAGTGTGTGTCCGCCAACGACAAGGTCGGCTTCATCCAGGACACCAAGACCGACA AGGCGTGCACAAGAAAGATCACCGTGAGTATATACACCATGCATCGTCGTCGTCGTCGCGTCGC CCCCCTAGCTGGCTTCTTCCTCTTTTGTCTTGCTAACGATCGATCTCGGTCTCACTGTGTAGTG TAGCTTGCAAGAGCATTACATTTGGTAAGTAGCTAGTAATGATGGTTTGCGTACCATTGTTTCA GGTGCCAAAGCCGATGAAAGGGCCGATACACATATACTACCAGCTCGAGAATTTCTATCAGAAC CATCGACGGTACGGTGTGAACCCTAGCTAGAACTTGATTCTTTGTGACCGCATGGATTGTGAAT GCTAACGACGACCGACCCCGGCCCCAGGTACGTGAAGAGCCGTAACGACATGCAGCTGCGGAAC AAGGGCGACGCGAGCACGATCGCCAACTGCGAGCCCGAGGCCACCAGCGAGGACGGCGGCAAGC CCATCGTGCCCTGCGGCCTCATCGCCTGGAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.161637633

Conservation Information
Conserved circRNAs	NA
PMCS	0.161637633

			
						 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 Zm00001d038750_circ_g.1

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