Plant Circular RNA Database

Detail information of Zm00001d021972_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d021972_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009455
					
						Alias
						Zm07circ00085
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 167292105-167294274  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d021972						
					
						Parent gene annotation
						
							Phospholipid-transporting ATPase 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d021972_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						Exon boundary  
						
							Yes-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-AC							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
						Zm00001d021972_T002:4
Zm00001d021972_T008:4
Zm00001d021972_T011:4
Zm00001d021972_T004:3
Zm00001d021972_T007:4
Zm00001d021972_T006:4
Zm00001d021972_T001:4
Zm00001d021972_T010:4
Zm00001d021972_T003:4
Zm00001d021972_T005:4
Zm00001d021972_T009:4

General Information
CircRNA Name	Zm00001d021972_circ_g.2
ID in PlantcircBase	zma_circ_009455
Alias	Zm07circ00085
Organism	Zea mays
Position	chr7: 167292105-167294274 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d021972
Parent gene annotation	Phospholipid-transporting ATPase 2
Parent gene strand	-
Alternative splicing	Zm00001d021972_circ_g.1
Support reads	NA
Tissues	leaf, endosperm
Exon boundary	Yes-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-AC 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	Zm00001d021972_T002:4 Zm00001d021972_T008:4 Zm00001d021972_T011:4 Zm00001d021972_T004:3 Zm00001d021972_T007:4 Zm00001d021972_T006:4 Zm00001d021972_T001:4 Zm00001d021972_T010:4 Zm00001d021972_T003:4 Zm00001d021972_T005:4 Zm00001d021972_T009:4

			
						 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  
						
							TTCCTACACCAATGTCAGCCTGTTGTATCATCCTTACATCATTCCCACCATCACCGATTGCCAA
AGTTCGATAGTCACATGACTTCAGAAGCTTCACTAGatgatacaatgatcgaccaaaccaacca
gcaaaggtacttggattgagaagcctacaaagatattcaaatagttaaaacttaaaaggaatta
aaagttta

									
								

					

						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
						
							ATGATACAATGATCGACCAAACCAACCAGCAAAGGTACTTGGATTGAGAAGCCTACAAAGATAT
TCAAATAGTTAAAACTTAAAAGGAATTAAAAGTTTAACAAAATAAAATTTATCTAGGAACTAGG
ATACTGGCAGATAAGAATAAAATCACAAAAGAGATACCGACCCTTAACAGCAACATGCAAGGGT
ATAGTTTACCTTCCAGCTTGGCAGTAAAGTAATATCTCTGGATTTTGCATCACTGTCTTTTCAG
ATAAATCCTTGTCCAGTACAGTAGTTAAAACAGGAATGCTTGTGTAGAAAACATTATAAGCCAT
CAAACTAACTGAGTTGAATAAGCTTGTTCCAGCAATGCCTGAAAGAAAAGAAAAACTGCATGCA
CAGAATATGAGCAATCAAGAAAACTAGCACACACTATACGTCCAACTACCATAATACAAGTACG
GACGGTTTATGGCTTACAGTATCTGAATAAAGCAAATTAACAATGACTTGTAGAAAGAGTACTG
CGACAGGAAGGCAGTGCGATTGTAGGAGTACCGCCCATGAACAAGAATCAACCTTTTCAGGAAC
CTGAATTCTGTAAAGTAAAAATACAAGTGTCAGAAAGGTTATATAAACTTGCACGGTATTAACT
ACTCCAGAGTTTAGTCAAACTATTATAGACCTAGACCAGAACAGAGAGGATATAAATTCACACA
AATTCAGTCAACTATAATGAAAAAATGACCATATATGTCTCATTAACCGGCCTATAGAACTTAC
AACCACACAAAACATTTCTCACTTTTTCAGGGTACAAAAGTACTGATTGTTGAACTACAGGACT
ACAAGGCTGATCTTCCCAACACACAACAGTGTAAGATGATAAACTCGGATGGGGAGGGAAAGAC
CGTCCTTCCAATATTATATTAAGAAGAGACCGAAACATGGTCCCGGCCGAGAAAATCCCCGAAC
CCTAGCCCCCCATCACTAGCGGGCCGTTACTGCCCACTCTACCACCGCCCACTCTACAATGGCC
CAGCTGGGAGGGTGGCGTGCAGCACGTAACCTGGGAGCAGGTGGGGCACAACGAGGGTTTTTCT
TTAACCAAGCCAAAAATTTGACCACAAGGGGGATCGAACCCAGGACCTGGAGGTGCTACTCAGA
AGCTTTAACCATTACGCTAGAAGCCCTTTCCCAACATTGTAAAATGATATTTCCCACAGAAATG
GAAATATATTTGAGTTCACAGCTTAATTTACATGTGAAGGCCAAGAAAGCTGAACACATATTGA
CATCACTATTATATCAACAGTACCTTGAACATAGAAAATAACTGAACTTGTATCACAATGAGCC
CAGGCATCATACTACCAAACAACTCAAATTATTCGTATCTACTTGTTTGGTGCCGAAAGAAGTC
GGTCCAAGCACCAAAAAGATAATGTATAGTCATTACTCATTAGGCTCCCCTCTTGTTCTAGAAG
GAATATATACCAACTTGATTGGCTGATATTTTTACTTTCTCTTTTCTTGGTTGAGTGGAGACAA
TTTGGTTACCAATTAGTACAGTCCACACATTTTACAATCTACAGGTCGAAGTTTCAATCCTTGA
AAACCTAGTAGAAAGTCCACATGAAGAACCCAACCAACCCATGGTCAGCAAGAGTCATCAAACT
GCAGTTGTCTGCCAAAAGGCCAAGATGTCACTGTTGGGCTATGCAACAGCAATTGCTTTGAGTA
CACTTTGGCATTCCCAGATTCTTATTGACTTCAACACACAAATGATTAACTTATAACTGACTTG
AAGATGTCCATGCATACAAAAGTAACTAAACAGAGTTTATATACCAGAACCAGAAAAAGTAAAC
AAGATGATTTGCAACAAAAACGTGAGAAAAAATAACAGTAATACTATGACAACTATCTAGTATA
CAGAAGACATGATAACCCACAGGTCTTATAAGTAAAGGATGTAGCGCTATAAGGATTGTGGTAG
CAGACAAAAAAGATAAGATGTTAAGTACTCACTGCCAATGCTATAGTCAGCAGCCCTTGCAGCT
TGAAGACCTTCCCTACCACTAATTCCTACACCAATGTCAGCCTGTTGTATCATCCTTACATCAT
TCCCACCATCACCGATTGCCAAAGTTCGATAGTCACATGACTTCAGAAGCTTCACTAG
						
					

			
		

Sequences
Splice junction sequence	TTCCTACACCAATGTCAGCCTGTTGTATCATCCTTACATCATTCCCACCATCACCGATTGCCAA AGTTCGATAGTCACATGACTTCAGAAGCTTCACTAGatgatacaatgatcgaccaaaccaacca gcaaaggtacttggattgagaagcctacaaagatattcaaatagttaaaacttaaaaggaatta aaagttta
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	ATGATACAATGATCGACCAAACCAACCAGCAAAGGTACTTGGATTGAGAAGCCTACAAAGATAT TCAAATAGTTAAAACTTAAAAGGAATTAAAAGTTTAACAAAATAAAATTTATCTAGGAACTAGG ATACTGGCAGATAAGAATAAAATCACAAAAGAGATACCGACCCTTAACAGCAACATGCAAGGGT ATAGTTTACCTTCCAGCTTGGCAGTAAAGTAATATCTCTGGATTTTGCATCACTGTCTTTTCAG ATAAATCCTTGTCCAGTACAGTAGTTAAAACAGGAATGCTTGTGTAGAAAACATTATAAGCCAT CAAACTAACTGAGTTGAATAAGCTTGTTCCAGCAATGCCTGAAAGAAAAGAAAAACTGCATGCA CAGAATATGAGCAATCAAGAAAACTAGCACACACTATACGTCCAACTACCATAATACAAGTACG GACGGTTTATGGCTTACAGTATCTGAATAAAGCAAATTAACAATGACTTGTAGAAAGAGTACTG CGACAGGAAGGCAGTGCGATTGTAGGAGTACCGCCCATGAACAAGAATCAACCTTTTCAGGAAC CTGAATTCTGTAAAGTAAAAATACAAGTGTCAGAAAGGTTATATAAACTTGCACGGTATTAACT ACTCCAGAGTTTAGTCAAACTATTATAGACCTAGACCAGAACAGAGAGGATATAAATTCACACA AATTCAGTCAACTATAATGAAAAAATGACCATATATGTCTCATTAACCGGCCTATAGAACTTAC AACCACACAAAACATTTCTCACTTTTTCAGGGTACAAAAGTACTGATTGTTGAACTACAGGACT ACAAGGCTGATCTTCCCAACACACAACAGTGTAAGATGATAAACTCGGATGGGGAGGGAAAGAC CGTCCTTCCAATATTATATTAAGAAGAGACCGAAACATGGTCCCGGCCGAGAAAATCCCCGAAC CCTAGCCCCCCATCACTAGCGGGCCGTTACTGCCCACTCTACCACCGCCCACTCTACAATGGCC CAGCTGGGAGGGTGGCGTGCAGCACGTAACCTGGGAGCAGGTGGGGCACAACGAGGGTTTTTCT TTAACCAAGCCAAAAATTTGACCACAAGGGGGATCGAACCCAGGACCTGGAGGTGCTACTCAGA AGCTTTAACCATTACGCTAGAAGCCCTTTCCCAACATTGTAAAATGATATTTCCCACAGAAATG GAAATATATTTGAGTTCACAGCTTAATTTACATGTGAAGGCCAAGAAAGCTGAACACATATTGA CATCACTATTATATCAACAGTACCTTGAACATAGAAAATAACTGAACTTGTATCACAATGAGCC CAGGCATCATACTACCAAACAACTCAAATTATTCGTATCTACTTGTTTGGTGCCGAAAGAAGTC GGTCCAAGCACCAAAAAGATAATGTATAGTCATTACTCATTAGGCTCCCCTCTTGTTCTAGAAG GAATATATACCAACTTGATTGGCTGATATTTTTACTTTCTCTTTTCTTGGTTGAGTGGAGACAA TTTGGTTACCAATTAGTACAGTCCACACATTTTACAATCTACAGGTCGAAGTTTCAATCCTTGA AAACCTAGTAGAAAGTCCACATGAAGAACCCAACCAACCCATGGTCAGCAAGAGTCATCAAACT GCAGTTGTCTGCCAAAAGGCCAAGATGTCACTGTTGGGCTATGCAACAGCAATTGCTTTGAGTA CACTTTGGCATTCCCAGATTCTTATTGACTTCAACACACAAATGATTAACTTATAACTGACTTG AAGATGTCCATGCATACAAAAGTAACTAAACAGAGTTTATATACCAGAACCAGAAAAAGTAAAC AAGATGATTTGCAACAAAAACGTGAGAAAAAATAACAGTAATACTATGACAACTATCTAGTATA CAGAAGACATGATAACCCACAGGTCTTATAAGTAAAGGATGTAGCGCTATAAGGATTGTGGTAG CAGACAAAAAAGATAAGATGTTAAGTACTCACTGCCAATGCTATAGTCAGCAGCCCTTGCAGCT TGAAGACCTTCCCTACCACTAATTCCTACACCAATGTCAGCCTGTTGTATCATCCTTACATCAT TCCCACCATCACCGATTGCCAAAGTTCGATAGTCACATGACTTCAGAAGCTTCACTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.151572089

Conservation Information
Conserved circRNAs	NA
PMCS	0.151572089

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							167294254-167292148(+)
167294207-167292107(-)
						
						Potential amino acid sequence
						
							MTSEASLDDTMIDQTNQQRYLD*(+)
MIQQADIGVGISGREGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICF
IQILFSFLSGIAGTSLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLL
NPSTFAGWFGRSLYHLVKLLKSCDYRTLAIGDGGNDVRMIQQADIGVGISGREGLQAARAADYS
IGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICFIQILFSFLSGIAGTSLFNSVSLMAYN
VFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLLNPSTFAGWFGRSLYHLVKLLKSCDYR
TLAIGDGGNDVRMIQQADIGVGISGREGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLS
QYSFYKSLLICFIQILFSFLSGIAGTSLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNP
EILLYCQAGRLLNPSTFAGWFGRSLYHLVKLLKSCDYRTLAIGDGGNDVRMIQQADIGVGISGR
EGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICFIQILFSFLSGIAGT
SLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLLNPSTFAGWFGRSLY
H(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	167294254-167292148(+) 167294207-167292107(-)
Potential amino acid sequence	MTSEASLDDTMIDQTNQQRYLD*(+) MIQQADIGVGISGREGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICF IQILFSFLSGIAGTSLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLL NPSTFAGWFGRSLYHLVKLLKSCDYRTLAIGDGGNDVRMIQQADIGVGISGREGLQAARAADYS IGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICFIQILFSFLSGIAGTSLFNSVSLMAYN VFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLLNPSTFAGWFGRSLYHLVKLLKSCDYR TLAIGDGGNDVRMIQQADIGVGISGREGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLS QYSFYKSLLICFIQILFSFLSGIAGTSLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNP EILLYCQAGRLLNPSTFAGWFGRSLYHLVKLLKSCDYRTLAIGDGGNDVRMIQQADIGVGISGR EGLQAARAADYSIGKFRFLKRLILVHGRYSYNRTAFLSQYSFYKSLLICFIQILFSFLSGIAGT SLFNSVSLMAYNVFYTSIPVLTTVLDKDLSEKTVMQNPEILLYCQAGRLLNPSTFAGWFGRSLY H(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d021972_circ_g.2

Address

Any questions?

Supported by