Plant Circular RNA Database

Detail information of Zm00001d045147_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d045147_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002901
					
						Alias
						circ1367
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 14237683-14241207  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d045147						
					
						Parent gene annotation
						
							Probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEA
H4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						Zm00001d045147_T006:5
Zm00001d045147_T013:5
Zm00001d045147_T003:4
Zm00001d045147_T004:2
Zm00001d045147_T025:5
Zm00001d045147_T005:2
Zm00001d045147_T021:4
Zm00001d045147_T001:5
Zm00001d045147_T010:5
Zm00001d045147_T023:4
Zm00001d045147_T026:5
Zm00001d045147_T017:5
Zm00001d045147_T015:5
Zm00001d045147_T020:6
Zm00001d045147_T011:5
Zm00001d045147_T024:5
Zm00001d045147_T019:5
Zm00001d045147_T008:6

General Information
CircRNA Name	Zm00001d045147_circ_g.1
ID in PlantcircBase	zma_circ_002901
Alias	circ1367
Organism	Zea mays
Position	chr9: 14237683-14241207 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	CIRI
Parent gene	Zm00001d045147
Parent gene annotation	Probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEA H4
Parent gene strand	-
Alternative splicing	NA
Support reads	2
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	Zm00001d045147_T006:5 Zm00001d045147_T013:5 Zm00001d045147_T003:4 Zm00001d045147_T004:2 Zm00001d045147_T025:5 Zm00001d045147_T005:2 Zm00001d045147_T021:4 Zm00001d045147_T001:5 Zm00001d045147_T010:5 Zm00001d045147_T023:4 Zm00001d045147_T026:5 Zm00001d045147_T017:5 Zm00001d045147_T015:5 Zm00001d045147_T020:6 Zm00001d045147_T011:5 Zm00001d045147_T024:5 Zm00001d045147_T019:5 Zm00001d045147_T008:6

			
						 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  
						
							GGTATACCTGCCATAACTCGTCCAACATCCGTTATTTGTCCGTTTTCATCAATTGCATCAATGA
GGTATAATTGCCTCAAAGCATCTTCTAATGACTCACcctgtacaagttgggtcctatagccaac
agtatggtagccattgtgatgcagcatcctctcagctagctggttaccatatcctacgcagaga
gctctcct

									
								

					

						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
						
							CCTGTACAAGTTGGGTCCTATAGCCAACAGTATGGTAGCCATTGTGATGCAGCATCCTCTCAGC
TAGCTGGTTACCATATCCTACGCAGAGAGCTCTCCTCAGCTTTCTATAATCAGGGTCATTCTTC
CGGCTTTTCCTTGCATCCACATCAGTTGAACCTAAATTAACAACATTTCAGGTTAACTTATGTG
GACCTGTTTCCCCGAGATGACACTATAGGAATCAAAGGAGACTTTGGATTAAAAAAACTTGGAC
AATTTACAGCAATCCACTAAAGTGACAACTGATGAGACAGAAATAAAAAATAATGGCATTTATC
ATTTCCAAATATCACATTTCTGTGTGCTTTTTTAATATCCAACAGAGGGCACGTAAGGACTAAT
CATCAGTACTGTATTACCCTGAGTAATCACTTGTTACATCTCCTTAGTTCCTATTTCCATTTAT
ACGACCCTTTTAATTTTTAAGCTGGTACTAGGATCAAGACAAATTAACGAAACCTATAGTTTCC
TAGACTAATTGGTCAACAGAGAGCACCTATACTACATAAATGGTAGTTTTGAAGCACATTTAAC
AACAACAAAAGCCTTATATGGGTTGCATCGCGGGTTCAACCTTCAGTAACAACAACAACAAAAG
CCTTATATGGGCTGCATCGCGGGTTCAACCTTCAGTAGAGTGAACCCATTCCTCATGCTTATAT
ACTAATTATTAGCTTGTGAGGGTTGAAGTTGTGATGGATCAACCCATTCAATTCCACCAACCAA
ACAAAATGTAAGGAGTGGAAAGATCAATCACCCCCATTATCCAACCAAACACCCTATTGATCCC
CAGCAAGTAGGGGTGCACTAGAGCTGAAATCCAACATGAGCCCTCAAATTACAAATTAAAATTC
GTTTTAGATAATTATAAGATTCATACAATACTTAGTGTATGTATTTTATATTTATGTCTAGATT
CATCATAATCCATTTGAACATAGACACAAAAATCAACACCTAAAACGACTAATATAATGGGACG
GAGGGAGTATAAGACAGCAATAGTGATATTAATAGGGGATTTACAGCCTATTCATAGTCCAGGC
ACAGGAATAACTGATTTACGTGCACTGCAATCAAAACTGAAAATACAAATTAGCTTACGAGTTA
CGAGGAAGAAGCTTAAAACAGTTCCAAAACTAGGCATGCAAGTTTTGCTTCCTCTGGATAAGTG
GGTCGACCCAAACTCATTTAATTGGACTACTCCAGATTTCAATGTGACAGATGTGGGATCAAAA
TGAGCTAGCTAGCTGACACACTAGTGCCACCACTTGCACTAGTCTATCACTGATCTTTGGAAAT
TGGAAGGGATTTGTTTCATCATTGATTCAAGAATTGAAGATAAAACAAAAGCTAGAGAATTGAC
CTTTTGCAATTTTTTGAATAATCTGACATAGTTGGTTCCTCACATCTTTGCTCAATTTCATACC
CCGCACCTGCAAAAGATGGTCAATATTAATACATATAAGGTGATATAATAGAATTAATGTCTTC
AAAACATATATATTTGATGCACATAAAATCGATTTCGTTTAATAAAGCTGAGCCATTACCCTTG
GTAAATGCAAGCATAAAAATATGGTTACCAGTGTTTTAACTTGCTGCATTCCTGGACTTAAAGT
TCAAAAAATATTTACGGTAGCTGTAAGTAGTAAACCATAATATGTATTGGAAAACTGAAGGGGC
TCGGGCAAAAGTCACAAACAAGAATAAAGTAAAAAAGTTATGATAGTAGAATCCTTTCCGAAAA
ATATTCAAGGGATTATCATCAATATAAAATTGTCTTGCACAAATATGTGTAACCCCTCTTTTGA
GACTAAAAAATAAAAGACTACATGATCCTTATATTTGGACAGATAACTGAAAATTATATGTTGT
TTCTAATCTTATAGATTCATTTTTGTATAGCATTCCCTTTCATCCTGAGAAATCAGATGAAAGT
TGTGGGCATGAAATTCTATCATGAAACCACAAAATGACAATCACGAGGGTATTTTGTGAAGAAC
TCAGGTGATGTCTTCCGTTCCTTGTCTTGAGTAAACAGGTATTTGCTTTTACTAACTACCCTAG
CATAGGTCTTGCTCTTGTTTATTAAGGGGGTGTTTGTTTGGGATTATAATCTGCCTAGATTATA
TAATCCAACTTATTTTGAACTAACACTTGTTCAAAATAGGTTAGATTATATAACCTGAGCAGAT
TATAATCCCAAACAAACATGCCCTAAACATATTAGAAACATGTTCTTTTCAGTCACCTGCAAAT
CATGATGAGAGCACCATTTTGTGTCATAGCCAGTTTGGTCCCAGCTTTCAAATATCTGAAGCAA
TTGTATATGGTCACCCCAGCCAGACCCATCAGGGAGCTCCTGCCTTTTCCTCTTTCCATCCACC
ACGTCCTTGCTGTATAAGTCCAGGTTGATCATATTCATATCATTGCGCATTAAGTTTAATACAG
TGGATGAAACGAGAGGGGAAGGGGATCACCTAACTGATCGCAATGTTATTTCTGCTGACAAAAT
CGATGCAACAGTTAACGCCTGAGATAGGCATCCCAATTCATTTGCTTCAATCAAAGTCCTTGAA
AGAGACGGCTCAAGAGGAAGCTCTGTATAAATTTTATCCTCAGAAAACCGAATTAAAAGATTCA
AAAGCTAGTGGACTCAAGTAAACTTATCCCATATGGGCCTTGTTTTGTTTCCGGTTTTCCGCTT
ATAATCGGATTCTCAGTGAAAATCCCACCAAACACTTCGATTGTCATAGTCTGTCAGGTGTCAG
CTACGATTCACGATTCCATTGTGCTATAAGAACTTGTAGCATATTCCTATGTGCAAAGAGGCAA
CTGAGCCAACTAATTATATCGGTAATGTGAAATTTATATAATACTATAAATACGCCCATTATTA
TCATCATAAGGCAATCACCCTTGCACAAGAGAGGGACCGGGTGCAATGACATGTTTCTGATTAG
TGGAATAATGGAATTACTCATTAAACAGCAATGTTAATATACATTGCAGTATGCTTGACTCGTG
TCAAGAAATCAAGGTATTTTATTGTTGCAAAGTACAAACACCAAGCGTGATATATGCACTACTT
CCCCTGTTGCTCAATCAGTAAGGATTCAAGTACACAATACTAAAGGCCAACACTAGAACTTAAA
CTGCAGATTATTGATACAGGTATACAACAAAGCTCAAGATGGCAGCACTATATTATAATGTCAT
GTGCAACTTCTATTGTTTGATCCTTCAAAGTTGAGGAATATTTTATGTTAATTTTGCTCACATT
TCAAGTTAAAAGGACAAAAAAAGGTTTGCAAATAACAGCTCAAGAAGGCTTTGAGCCTTTGACA
ACCATTTAATTTCAATAGAAACAAGACAGACTCGGTATACCTGCCATAACTCGTCCAACATCCG
TTATTTGTCCGTTTTCATCAATTGCATCAATGAGGTATAATTGCCTCAAAGCATCTTCTAATGA
CTCAC
						
					

			
		

Sequences
Splice junction sequence	GGTATACCTGCCATAACTCGTCCAACATCCGTTATTTGTCCGTTTTCATCAATTGCATCAATGA GGTATAATTGCCTCAAAGCATCTTCTAATGACTCACcctgtacaagttgggtcctatagccaac agtatggtagccattgtgatgcagcatcctctcagctagctggttaccatatcctacgcagaga gctctcct
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	CCTGTACAAGTTGGGTCCTATAGCCAACAGTATGGTAGCCATTGTGATGCAGCATCCTCTCAGC TAGCTGGTTACCATATCCTACGCAGAGAGCTCTCCTCAGCTTTCTATAATCAGGGTCATTCTTC CGGCTTTTCCTTGCATCCACATCAGTTGAACCTAAATTAACAACATTTCAGGTTAACTTATGTG GACCTGTTTCCCCGAGATGACACTATAGGAATCAAAGGAGACTTTGGATTAAAAAAACTTGGAC AATTTACAGCAATCCACTAAAGTGACAACTGATGAGACAGAAATAAAAAATAATGGCATTTATC ATTTCCAAATATCACATTTCTGTGTGCTTTTTTAATATCCAACAGAGGGCACGTAAGGACTAAT CATCAGTACTGTATTACCCTGAGTAATCACTTGTTACATCTCCTTAGTTCCTATTTCCATTTAT ACGACCCTTTTAATTTTTAAGCTGGTACTAGGATCAAGACAAATTAACGAAACCTATAGTTTCC TAGACTAATTGGTCAACAGAGAGCACCTATACTACATAAATGGTAGTTTTGAAGCACATTTAAC AACAACAAAAGCCTTATATGGGTTGCATCGCGGGTTCAACCTTCAGTAACAACAACAACAAAAG CCTTATATGGGCTGCATCGCGGGTTCAACCTTCAGTAGAGTGAACCCATTCCTCATGCTTATAT ACTAATTATTAGCTTGTGAGGGTTGAAGTTGTGATGGATCAACCCATTCAATTCCACCAACCAA ACAAAATGTAAGGAGTGGAAAGATCAATCACCCCCATTATCCAACCAAACACCCTATTGATCCC CAGCAAGTAGGGGTGCACTAGAGCTGAAATCCAACATGAGCCCTCAAATTACAAATTAAAATTC GTTTTAGATAATTATAAGATTCATACAATACTTAGTGTATGTATTTTATATTTATGTCTAGATT CATCATAATCCATTTGAACATAGACACAAAAATCAACACCTAAAACGACTAATATAATGGGACG GAGGGAGTATAAGACAGCAATAGTGATATTAATAGGGGATTTACAGCCTATTCATAGTCCAGGC ACAGGAATAACTGATTTACGTGCACTGCAATCAAAACTGAAAATACAAATTAGCTTACGAGTTA CGAGGAAGAAGCTTAAAACAGTTCCAAAACTAGGCATGCAAGTTTTGCTTCCTCTGGATAAGTG GGTCGACCCAAACTCATTTAATTGGACTACTCCAGATTTCAATGTGACAGATGTGGGATCAAAA TGAGCTAGCTAGCTGACACACTAGTGCCACCACTTGCACTAGTCTATCACTGATCTTTGGAAAT TGGAAGGGATTTGTTTCATCATTGATTCAAGAATTGAAGATAAAACAAAAGCTAGAGAATTGAC CTTTTGCAATTTTTTGAATAATCTGACATAGTTGGTTCCTCACATCTTTGCTCAATTTCATACC CCGCACCTGCAAAAGATGGTCAATATTAATACATATAAGGTGATATAATAGAATTAATGTCTTC AAAACATATATATTTGATGCACATAAAATCGATTTCGTTTAATAAAGCTGAGCCATTACCCTTG GTAAATGCAAGCATAAAAATATGGTTACCAGTGTTTTAACTTGCTGCATTCCTGGACTTAAAGT TCAAAAAATATTTACGGTAGCTGTAAGTAGTAAACCATAATATGTATTGGAAAACTGAAGGGGC TCGGGCAAAAGTCACAAACAAGAATAAAGTAAAAAAGTTATGATAGTAGAATCCTTTCCGAAAA ATATTCAAGGGATTATCATCAATATAAAATTGTCTTGCACAAATATGTGTAACCCCTCTTTTGA GACTAAAAAATAAAAGACTACATGATCCTTATATTTGGACAGATAACTGAAAATTATATGTTGT TTCTAATCTTATAGATTCATTTTTGTATAGCATTCCCTTTCATCCTGAGAAATCAGATGAAAGT TGTGGGCATGAAATTCTATCATGAAACCACAAAATGACAATCACGAGGGTATTTTGTGAAGAAC TCAGGTGATGTCTTCCGTTCCTTGTCTTGAGTAAACAGGTATTTGCTTTTACTAACTACCCTAG CATAGGTCTTGCTCTTGTTTATTAAGGGGGTGTTTGTTTGGGATTATAATCTGCCTAGATTATA TAATCCAACTTATTTTGAACTAACACTTGTTCAAAATAGGTTAGATTATATAACCTGAGCAGAT TATAATCCCAAACAAACATGCCCTAAACATATTAGAAACATGTTCTTTTCAGTCACCTGCAAAT CATGATGAGAGCACCATTTTGTGTCATAGCCAGTTTGGTCCCAGCTTTCAAATATCTGAAGCAA TTGTATATGGTCACCCCAGCCAGACCCATCAGGGAGCTCCTGCCTTTTCCTCTTTCCATCCACC ACGTCCTTGCTGTATAAGTCCAGGTTGATCATATTCATATCATTGCGCATTAAGTTTAATACAG TGGATGAAACGAGAGGGGAAGGGGATCACCTAACTGATCGCAATGTTATTTCTGCTGACAAAAT CGATGCAACAGTTAACGCCTGAGATAGGCATCCCAATTCATTTGCTTCAATCAAAGTCCTTGAA AGAGACGGCTCAAGAGGAAGCTCTGTATAAATTTTATCCTCAGAAAACCGAATTAAAAGATTCA AAAGCTAGTGGACTCAAGTAAACTTATCCCATATGGGCCTTGTTTTGTTTCCGGTTTTCCGCTT ATAATCGGATTCTCAGTGAAAATCCCACCAAACACTTCGATTGTCATAGTCTGTCAGGTGTCAG CTACGATTCACGATTCCATTGTGCTATAAGAACTTGTAGCATATTCCTATGTGCAAAGAGGCAA CTGAGCCAACTAATTATATCGGTAATGTGAAATTTATATAATACTATAAATACGCCCATTATTA TCATCATAAGGCAATCACCCTTGCACAAGAGAGGGACCGGGTGCAATGACATGTTTCTGATTAG TGGAATAATGGAATTACTCATTAAACAGCAATGTTAATATACATTGCAGTATGCTTGACTCGTG TCAAGAAATCAAGGTATTTTATTGTTGCAAAGTACAAACACCAAGCGTGATATATGCACTACTT CCCCTGTTGCTCAATCAGTAAGGATTCAAGTACACAATACTAAAGGCCAACACTAGAACTTAAA CTGCAGATTATTGATACAGGTATACAACAAAGCTCAAGATGGCAGCACTATATTATAATGTCAT GTGCAACTTCTATTGTTTGATCCTTCAAAGTTGAGGAATATTTTATGTTAATTTTGCTCACATT TCAAGTTAAAAGGACAAAAAAAGGTTTGCAAATAACAGCTCAAGAAGGCTTTGAGCCTTTGACA ACCATTTAATTTCAATAGAAACAAGACAGACTCGGTATACCTGCCATAACTCGTCCAACATCCG TTATTTGTCCGTTTTCATCAATTGCATCAATGAGGTATAATTGCCTCAAAGCATCTTCTAATGA CTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.006784894

Conservation Information
Conserved circRNAs	NA
PMCS	0.006784894

			
						 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 Zm00001d045147_circ_g.1

Address

Any questions?

Supported by