Plant Circular RNA Database

Detail information of Zm00001d046369_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d046369_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002966
					
						Alias
						circ1394
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 84817372-84821691  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d046369						
					
						Parent gene annotation
						
							Serine/threonine-protein phosphatase  
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d046369_circ_g.2 						
					
						Support reads
						3
					
						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
						Zm00001d046369_T003:5
Zm00001d046369_T006:4
Zm00001d046369_T007:1
Zm00001d046369_T005:4
Zm00001d046369_T002:4
Zm00001d046369_T001:4
Zm00001d046369_T004:4

General Information
CircRNA Name	Zm00001d046369_circ_g.1
ID in PlantcircBase	zma_circ_002966
Alias	circ1394
Organism	Zea mays
Position	chr9: 84817372-84821691 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	CIRI
Parent gene	Zm00001d046369
Parent gene annotation	Serine/threonine-protein phosphatase
Parent gene strand	+
Alternative splicing	Zm00001d046369_circ_g.2
Support reads	3
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	Zm00001d046369_T003:5 Zm00001d046369_T006:4 Zm00001d046369_T007:1 Zm00001d046369_T005:4 Zm00001d046369_T002:4 Zm00001d046369_T001:4 Zm00001d046369_T004:4

			
						 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  
						
							ATTTGGCCAAGATATTGCACAACAATTCAACCATACAAATGGGCTAAGTCTTATTTCAAGAGCT
CATCAACTTGTAATGGAAGGGTTCAATTGGTGCCAGgaccgtggctactactcagtggagactg
tgtccttattggtggctctaaaagtacgttatagagacagaatcacaatattgagaggaaatca
tgagagta

									
								

					

						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
						
							GACCGTGGCTACTACTCAGTGGAGACTGTGTCCTTATTGGTGGCTCTAAAAGTACGTTATAGAG
ACAGAATCACAATATTGAGAGGAAATCATGAGAGTAGACAAATAACTCAAGTGTGAGTTCCTAT
TCCTTTAGCTGAACTCTACAGCAGTACAGAATTACTAATTTCAGTATAAGATTTTTTATCGCAG
TCACTGGAAACATGATGACATTATTAAGTAATTTTCCCTTTAAATTGTTACCACCTCCGTTCCA
AATTGTTAGACGCTCTGGCTTTTCTAGATACATTGCTGTTACTACGTATATAGACATGATGTAT
ATCTAAGTGCATAGCAAAAACTATGTATCTAGAAAAGTCAAAATGTCTTACAATTTGGAATGGA
GGGAATAAGTTCGAAACGGGTTTCCTAGACACCGAGTCCATACTAATGAATTCTATAACAGGCT
TAAAACTTAAAAGTTCTACTTCTACTGCCAAGTGAACTAGGGAAATCTTTCTCTGTTTCCTAGC
CATATCATTACTTCTTTGCAATACTCAGGTTCCTAAGGGCTTGTTTGGTTAGAAGGGGATTGAG
CCCCTCAATTCCCTTCTAACCGAACAAGCCCTAAAGGATTTCAGCCTTGTTTACTTTATTTTTC
ATTAACGATGCATGCTTAAGATAAACTACACATTACTTCTGTGTTCAAGGGCATCAAACATAAT
AAGTAGACTAAATATGTGAAACGTAACTGCTGTGACATCAAATCATTTTTGTATTATATTCTGG
AGCATCTTATTGGTCTAATGAGCTCCATAACCTAGTTTCAGCTTCAGAAAGTCATAATCTGATA
CGGAAGTTGGCTACACAGGCTTCTTTCTCTATCTTGATTCTTGAGAATTGGATTCTCATAACTT
CACTCTGCCTCTATCCAAATTTTAGACGAGTTATTGTTGATTTGAGATGGAAAAATTTTCTAGA
CTACTGTAGATTCAGATGTGGATAACTGACAGGATATAGAATTCCGAACCTGCAGCTGCAGATC
ACTTGGTCTGGTTTTCTAACTGTAGGACATTATAGTGCATGTTTATCAGGCTTAAACCCTTGAC
AACATTTCCCACAAGGTGAAGGACCTCTCTTGTACACATTCTTATCTATCCCCACACCCCTATT
TTGCATGCTTGTCAGTCCTTAATCTGCAAACCATTATCTAGATTTTTAAAATGTGAATTGAATT
ATTCTGCAAGTTCATTTAGATATTTTTGAAAAAGCAAACCCAATATAGATTGCAGTTTCACAAT
TTCAACAACCAATTCAACTGCATAATATTCTGTTTAGTTTATTTGTCAATTATTTGATATTAAT
TTGCCGACTTCTTCATGAAAGTTGAGTATCTCAAGTCTCAACATGTCTTATAGACACAATGGCG
AAATGGCCACTAGCCGAGTTGGTTAGGTGGTATGAGTAGCACTCCTCAGGTCCTGGGTTCGACT
CCTCGTGGGAGTGAATTTTAGGTTGTGGTTAAAAAAATCCCCTCATCTGTCCCACGCCAAAGCA
CAGGTTTAAGGCTCAGCCCCGGTCGCGGTCGTTCTCACATGGGCTTCGATGCCGCTGTGTATGG
GTGGGGCGGGGGGTTCCGGGGTTTTCTCGAAGTGTGTGAGAAGGTCTTCTTCTTAATACAATAC
TCGGGGGCTGTCTTACCCCCCGTGGGTCGAGTTTTTATAGACACAATCTAGTTTCTGTGGGATG
TTTAATGGACTAATCAGGTATCGATGCATGGAAAGGACGTTTTGGGTCATGGCATCCCATGCTT
ACAAATGAAACCATCATTACTTCAGTATATAAAGCAAAGTTTACTTACAATAAACAACAATGCA
ACACACTTTTGCCATGAGGTATATACATTGATGTTCAGCTGTTTTGTTGCATTGGCCTACATTA
TGAAATGCAACTATACAAACACACCCAAAAAGCGATAGGGTGCTCTTTACATCAAATGTTTGGC
TACAGGTATGGCTTCTATGATGAATGCTTGCGGAAATATGGAAATGCAAATGTGTGGAAGTACT
TTACAGACTTGTTTGATTATTTGCCTCTCACAGCTCTTATAGAAAATCAGGTTTGTTCTCTGGT
TATGTCGTAGCGCATTGATATTAACTTGTGATTCTGTTCTGTCTATACCTGGCAAAAGCTGAAA
AATTCCATTTTGCAGATCTTCTGCCTACATGGTGGTCTCTCTCCATCACTGGATACTTTGGATA
ATGTCCGCTCCCTTGATCGCATACAAGAGGTTGGCAACAAATTTTCCTTCATTTCTGTGAACTG
GTTACTGATTATGGATATAATTATACATGTCACACATTTTGATCTGTAGACTATTCTGTGGACA
TCTTTCTTGTGAATTGGGGACTTGGTGTTAGAGATCCAATTTCTTTTGAGATATCTATGTTGAT
CGTTGAAGTCTGCATAGACATAACAGGTCTGGCTGTCAAGACATAGATAGCTCCGTTTATTAAA
TATATCTGTTAGGTAGGTTAGTAAGGAAGAAGATTGCATATGGAATCCCCTTATGTCTTATTGG
TTAACTCGGGAGATTTTGAACCTTCTGATTTGCATCTGCATGGACCAAAACACATTGGTCCTGT
TTGTTTCAGCTTTTTTGCTAATTCTGGCCGCCAGAAGCTGATGCGGACTGCCAAACACCTCAGC
TTTTCAACCAACTTCTATGTGAATAACTTTGGTGAAAACCGTCCAAAATCAACGTGAACACAAT
CGGTCGAGCATGGTTATCAAGGCGTCCTTGAAGCGTCGCCTTAGCGTCGCTTAGGTGCTAAGGC
GTGCCTGGAAACCAAGGCGTCTAACTCGCCTTGCCCTCGAGCGTAAGGCATTTGCCACGACGCA
GGGCGTCGGCGGACAACGCCTTGGGGGAGGATAGGGCTGCGGCGGTGGCGGCGCGTGGCTCCAG
ACGGCTAGACAGAGGAGAGAAGGAGCTGCGGGGAGGGAAAGAGGAGCTGTGATGGAGGGAGAGC
GACGGCTGAGGGAGAGCGGCGGCGGCTGCACGGGAGTGGAGGGAGAGCGACGACCATGGTTTTT
AAAGCGGTAAGGCGGTCCAAGGCGTTGGACCACCGCCTGGACGCCTAGGCGAGGTAGGCGGGCA
AGGCGCCTAGGCGTTAGACCACCGCCCGGACGCCTAGGCGACGACTGAGGGAGTGGCTGCTGCA
GTGTTGCTGCACAGGAGTGGTTGTAGGCTTAGGTTTTAACCTAAAACTGCTATTGGGCTAGGTT
GGTTGGGCCTCTTGGCTGACTGGTTGTAGGCTTTTTTTTCTTTTTCTTTTTTTCCTATCTCTCT
TCTACTAGGCTCAAATGGGCCTACTAGGCTTGTGCTACCTTGTTTATTAATTTTGAATTAGTGT
TATATAAATGATATTTGATCTAATCTTTTATATTACTGTATAATTAGGGTGTTGCCTCGCCAAA
CGCTTTACTGCCTAAAAGGTAAAAGGGGTCGGTCGCCTTATACCGCCTTAATAACTATGCGGTC
GAGTCGTCGTGATAGTAGAAATCCGTCACTTTCTAGATCCTAAACCCTATGAACCCCTTCATCT
TCCTCCGCATGTAATCCTCATGATATTCAGATTCTTCCCACAGCCAGATTCTCAGAAAAGCTCA
TCAGAAAAAGCTGAAACAAACAGGCTCTGTCTTGTCTGATTGTGAGAAGAACCTTAGAAACTAC
AAGTACAGATTTTAGAATTATCTGTTCACTTTGTTGCAGTTGGGTGGTTGTCTTAAAAAACAGA
AGCGATTCGATCCATTTTCCATCTTTGCATGATAACTTTTTTCCTAGCTTAGTTGCATTGAGAA
AGAGATTTAAGGGCTTTTTGGTTGCCTGGCTTAGATTTTGGACCAGCTATAGTCAGGCCAGGTA
GAGAAGAGGCTAAGAGGGGGTTTTGTTCGGTTGTATGGCTGTAGAAGCCTACGATATTTCAGCT
ATTCAGTTTCTTGACACTGATTGTTCTTAAATGATTTACAAATGATATCTCAATTGAGATTTAA
GGTATAAATATCATAGTTTTTGTATATAATATTTTGCTGATTTCTCATTTTGTCTTCCTTGATT
AATATTTCCTCTGTTATTTAAAATGGCTGTAGGTCCCGCATGAAGGACCTATGTGTGATCTTTT
GTGGTCTGACCCGGATGACAGATGTGGATGGGGAATTTCACCAAGGGGTGCTGGATACACATTT
GGCCAAGATATTGCACAACAATTCAACCATACAAATGGGCTAAGTCTTATTTCAAGAGCTCATC
AACTTGTAATGGAAGGGTTCAATTGGTGCCAG
						
					

			
		

Sequences
Splice junction sequence	ATTTGGCCAAGATATTGCACAACAATTCAACCATACAAATGGGCTAAGTCTTATTTCAAGAGCT CATCAACTTGTAATGGAAGGGTTCAATTGGTGCCAGgaccgtggctactactcagtggagactg tgtccttattggtggctctaaaagtacgttatagagacagaatcacaatattgagaggaaatca tgagagta
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	GACCGTGGCTACTACTCAGTGGAGACTGTGTCCTTATTGGTGGCTCTAAAAGTACGTTATAGAG ACAGAATCACAATATTGAGAGGAAATCATGAGAGTAGACAAATAACTCAAGTGTGAGTTCCTAT TCCTTTAGCTGAACTCTACAGCAGTACAGAATTACTAATTTCAGTATAAGATTTTTTATCGCAG TCACTGGAAACATGATGACATTATTAAGTAATTTTCCCTTTAAATTGTTACCACCTCCGTTCCA AATTGTTAGACGCTCTGGCTTTTCTAGATACATTGCTGTTACTACGTATATAGACATGATGTAT ATCTAAGTGCATAGCAAAAACTATGTATCTAGAAAAGTCAAAATGTCTTACAATTTGGAATGGA GGGAATAAGTTCGAAACGGGTTTCCTAGACACCGAGTCCATACTAATGAATTCTATAACAGGCT TAAAACTTAAAAGTTCTACTTCTACTGCCAAGTGAACTAGGGAAATCTTTCTCTGTTTCCTAGC CATATCATTACTTCTTTGCAATACTCAGGTTCCTAAGGGCTTGTTTGGTTAGAAGGGGATTGAG CCCCTCAATTCCCTTCTAACCGAACAAGCCCTAAAGGATTTCAGCCTTGTTTACTTTATTTTTC ATTAACGATGCATGCTTAAGATAAACTACACATTACTTCTGTGTTCAAGGGCATCAAACATAAT AAGTAGACTAAATATGTGAAACGTAACTGCTGTGACATCAAATCATTTTTGTATTATATTCTGG AGCATCTTATTGGTCTAATGAGCTCCATAACCTAGTTTCAGCTTCAGAAAGTCATAATCTGATA CGGAAGTTGGCTACACAGGCTTCTTTCTCTATCTTGATTCTTGAGAATTGGATTCTCATAACTT CACTCTGCCTCTATCCAAATTTTAGACGAGTTATTGTTGATTTGAGATGGAAAAATTTTCTAGA CTACTGTAGATTCAGATGTGGATAACTGACAGGATATAGAATTCCGAACCTGCAGCTGCAGATC ACTTGGTCTGGTTTTCTAACTGTAGGACATTATAGTGCATGTTTATCAGGCTTAAACCCTTGAC AACATTTCCCACAAGGTGAAGGACCTCTCTTGTACACATTCTTATCTATCCCCACACCCCTATT TTGCATGCTTGTCAGTCCTTAATCTGCAAACCATTATCTAGATTTTTAAAATGTGAATTGAATT ATTCTGCAAGTTCATTTAGATATTTTTGAAAAAGCAAACCCAATATAGATTGCAGTTTCACAAT TTCAACAACCAATTCAACTGCATAATATTCTGTTTAGTTTATTTGTCAATTATTTGATATTAAT TTGCCGACTTCTTCATGAAAGTTGAGTATCTCAAGTCTCAACATGTCTTATAGACACAATGGCG AAATGGCCACTAGCCGAGTTGGTTAGGTGGTATGAGTAGCACTCCTCAGGTCCTGGGTTCGACT CCTCGTGGGAGTGAATTTTAGGTTGTGGTTAAAAAAATCCCCTCATCTGTCCCACGCCAAAGCA CAGGTTTAAGGCTCAGCCCCGGTCGCGGTCGTTCTCACATGGGCTTCGATGCCGCTGTGTATGG GTGGGGCGGGGGGTTCCGGGGTTTTCTCGAAGTGTGTGAGAAGGTCTTCTTCTTAATACAATAC TCGGGGGCTGTCTTACCCCCCGTGGGTCGAGTTTTTATAGACACAATCTAGTTTCTGTGGGATG TTTAATGGACTAATCAGGTATCGATGCATGGAAAGGACGTTTTGGGTCATGGCATCCCATGCTT ACAAATGAAACCATCATTACTTCAGTATATAAAGCAAAGTTTACTTACAATAAACAACAATGCA ACACACTTTTGCCATGAGGTATATACATTGATGTTCAGCTGTTTTGTTGCATTGGCCTACATTA TGAAATGCAACTATACAAACACACCCAAAAAGCGATAGGGTGCTCTTTACATCAAATGTTTGGC TACAGGTATGGCTTCTATGATGAATGCTTGCGGAAATATGGAAATGCAAATGTGTGGAAGTACT TTACAGACTTGTTTGATTATTTGCCTCTCACAGCTCTTATAGAAAATCAGGTTTGTTCTCTGGT TATGTCGTAGCGCATTGATATTAACTTGTGATTCTGTTCTGTCTATACCTGGCAAAAGCTGAAA AATTCCATTTTGCAGATCTTCTGCCTACATGGTGGTCTCTCTCCATCACTGGATACTTTGGATA ATGTCCGCTCCCTTGATCGCATACAAGAGGTTGGCAACAAATTTTCCTTCATTTCTGTGAACTG GTTACTGATTATGGATATAATTATACATGTCACACATTTTGATCTGTAGACTATTCTGTGGACA TCTTTCTTGTGAATTGGGGACTTGGTGTTAGAGATCCAATTTCTTTTGAGATATCTATGTTGAT CGTTGAAGTCTGCATAGACATAACAGGTCTGGCTGTCAAGACATAGATAGCTCCGTTTATTAAA TATATCTGTTAGGTAGGTTAGTAAGGAAGAAGATTGCATATGGAATCCCCTTATGTCTTATTGG TTAACTCGGGAGATTTTGAACCTTCTGATTTGCATCTGCATGGACCAAAACACATTGGTCCTGT TTGTTTCAGCTTTTTTGCTAATTCTGGCCGCCAGAAGCTGATGCGGACTGCCAAACACCTCAGC TTTTCAACCAACTTCTATGTGAATAACTTTGGTGAAAACCGTCCAAAATCAACGTGAACACAAT CGGTCGAGCATGGTTATCAAGGCGTCCTTGAAGCGTCGCCTTAGCGTCGCTTAGGTGCTAAGGC GTGCCTGGAAACCAAGGCGTCTAACTCGCCTTGCCCTCGAGCGTAAGGCATTTGCCACGACGCA GGGCGTCGGCGGACAACGCCTTGGGGGAGGATAGGGCTGCGGCGGTGGCGGCGCGTGGCTCCAG ACGGCTAGACAGAGGAGAGAAGGAGCTGCGGGGAGGGAAAGAGGAGCTGTGATGGAGGGAGAGC GACGGCTGAGGGAGAGCGGCGGCGGCTGCACGGGAGTGGAGGGAGAGCGACGACCATGGTTTTT AAAGCGGTAAGGCGGTCCAAGGCGTTGGACCACCGCCTGGACGCCTAGGCGAGGTAGGCGGGCA AGGCGCCTAGGCGTTAGACCACCGCCCGGACGCCTAGGCGACGACTGAGGGAGTGGCTGCTGCA GTGTTGCTGCACAGGAGTGGTTGTAGGCTTAGGTTTTAACCTAAAACTGCTATTGGGCTAGGTT GGTTGGGCCTCTTGGCTGACTGGTTGTAGGCTTTTTTTTCTTTTTCTTTTTTTCCTATCTCTCT TCTACTAGGCTCAAATGGGCCTACTAGGCTTGTGCTACCTTGTTTATTAATTTTGAATTAGTGT TATATAAATGATATTTGATCTAATCTTTTATATTACTGTATAATTAGGGTGTTGCCTCGCCAAA CGCTTTACTGCCTAAAAGGTAAAAGGGGTCGGTCGCCTTATACCGCCTTAATAACTATGCGGTC GAGTCGTCGTGATAGTAGAAATCCGTCACTTTCTAGATCCTAAACCCTATGAACCCCTTCATCT TCCTCCGCATGTAATCCTCATGATATTCAGATTCTTCCCACAGCCAGATTCTCAGAAAAGCTCA TCAGAAAAAGCTGAAACAAACAGGCTCTGTCTTGTCTGATTGTGAGAAGAACCTTAGAAACTAC AAGTACAGATTTTAGAATTATCTGTTCACTTTGTTGCAGTTGGGTGGTTGTCTTAAAAAACAGA AGCGATTCGATCCATTTTCCATCTTTGCATGATAACTTTTTTCCTAGCTTAGTTGCATTGAGAA AGAGATTTAAGGGCTTTTTGGTTGCCTGGCTTAGATTTTGGACCAGCTATAGTCAGGCCAGGTA GAGAAGAGGCTAAGAGGGGGTTTTGTTCGGTTGTATGGCTGTAGAAGCCTACGATATTTCAGCT ATTCAGTTTCTTGACACTGATTGTTCTTAAATGATTTACAAATGATATCTCAATTGAGATTTAA GGTATAAATATCATAGTTTTTGTATATAATATTTTGCTGATTTCTCATTTTGTCTTCCTTGATT AATATTTCCTCTGTTATTTAAAATGGCTGTAGGTCCCGCATGAAGGACCTATGTGTGATCTTTT GTGGTCTGACCCGGATGACAGATGTGGATGGGGAATTTCACCAAGGGGTGCTGGATACACATTT GGCCAAGATATTGCACAACAATTCAACCATACAAATGGGCTAAGTCTTATTTCAAGAGCTCATC AACTTGTAATGGAAGGGTTCAATTGGTGCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_012715 osa_circ_013881 						
					
						PMCS
						0.005787006

Conservation Information
Conserved circRNAs	osi_circ_012715 osa_circ_013881
PMCS	0.005787006

			
						 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 Zm00001d046369_circ_g.1

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