Plant Circular RNA Database

Detail information of Zm00001d005257_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d005257_circ_g.7
					
						ID in PlantcircBase
						zma_circ_007302
					
						Alias
						zma_circ_0000832, GRMZM2G068212_C5
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 166030398-166037660  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d005257						
					
						Parent gene annotation
						
							Sulfate transporter 4.1 chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d005257_circ_g.1 Zm00001d005257_circ_g.2 Zm00001d005257_circ_g.3 Zm00001d005257_circ_g.4 Zm00001d005257_circ_g.5 Zm00001d005257_circ_g.6 Zm00001d005257_circ_g.8 Zm00001d005257_circ_g.9 Zm00001d005257_circ_g.10 Zm00001d005257_circ_g.11 Zm00001d005257_circ_g.12 						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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
						Zm00001d005257_T003:4
Zm00001d005257_T001:3
Zm00001d005257_T004:4
Zm00001d005257_T002:6

General Information
CircRNA Name	Zm00001d005257_circ_g.7
ID in PlantcircBase	zma_circ_007302
Alias	zma_circ_0000832, GRMZM2G068212_C5
Organism	Zea mays
Position	chr2: 166030398-166037660 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d005257
Parent gene annotation	Sulfate transporter 4.1 chloroplastic
Parent gene strand	-
Alternative splicing	Zm00001d005257_circ_g.1 Zm00001d005257_circ_g.2 Zm00001d005257_circ_g.3 Zm00001d005257_circ_g.4 Zm00001d005257_circ_g.5 Zm00001d005257_circ_g.6 Zm00001d005257_circ_g.8 Zm00001d005257_circ_g.9 Zm00001d005257_circ_g.10 Zm00001d005257_circ_g.11 Zm00001d005257_circ_g.12
Support reads	NA
Tissues	leaf, root
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	Zm00001d005257_T003:4 Zm00001d005257_T001:3 Zm00001d005257_T004:4 Zm00001d005257_T002:6

			
						 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  
						
							AATAAATAAATAAATAAATAAAACAGAAACTTACTGTATTTTTCATAATTAGAAGAATCGCAAG
AAAAATTGATCCCATCACAAACGGAGGCCAGGAGAActggggtatatcagtaaataatggggtc
ataaataagagagcaccaccaatgattatgcccattatgattccagataacccagtttttgccc
cactttca

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 537
Transcript exons: 166030398-166030525,166030640-166030700,166031157-166031
222,166031307-166031414,166037373-166037480,166037595-16
6037660
CTGGGGTATATCAGTAAATAATGGGGTCATAAATAAGAGAGCACCACCAATGATTATGCCCATT
ATGATTCCAGATAACCCAGTTTTTGCCCCACTTTCATGATTCACTGCTGACCTAGAAAAGGAGC
CTGTGGCAGGATATGCAGAGAAGAATGAACCACAGATATTTGCTATTCCCAGACCAAATAACTC
TTTGTTAGAGTCCAACTCATACCCATTCTTCGCTGCCAAAGCTTTAGCAATACCAACAGATTCC
AAAATAGCAACACCAGTGATTAGTACAGCAGTTGGCACAAGTGACATTAGATGCTCAAATCCTT
GAGGAATGGAGAACCTGGGAAGACCCTGTGGTATTTCACCAACCACTGATATGGCTGGTGGATG
AAAGATTTTCACAAAAATTGTTCCAAGCACAACAGCCGTAAGAGGACCAGAAACTCTTAGAAAA
TGCAATCTTTTATTGGATTTTCCTGTATTTTTCATAATTAGAAGAATCGCAAGAAAAATTGATC
CCATCACAAACGGAGGCCAGGAGAA
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	AATAAATAAATAAATAAATAAAACAGAAACTTACTGTATTTTTCATAATTAGAAGAATCGCAAG AAAAATTGATCCCATCACAAACGGAGGCCAGGAGAActggggtatatcagtaaataatggggtc ataaataagagagcaccaccaatgattatgcccattatgattccagataacccagtttttgccc cactttca
Assembled circRNA sequence	Yes 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	Transcript length: 537 Transcript exons: 166030398-166030525,166030640-166030700,166031157-166031 222,166031307-166031414,166037373-166037480,166037595-16 6037660 CTGGGGTATATCAGTAAATAATGGGGTCATAAATAAGAGAGCACCACCAATGATTATGCCCATT ATGATTCCAGATAACCCAGTTTTTGCCCCACTTTCATGATTCACTGCTGACCTAGAAAAGGAGC CTGTGGCAGGATATGCAGAGAAGAATGAACCACAGATATTTGCTATTCCCAGACCAAATAACTC TTTGTTAGAGTCCAACTCATACCCATTCTTCGCTGCCAAAGCTTTAGCAATACCAACAGATTCC AAAATAGCAACACCAGTGATTAGTACAGCAGTTGGCACAAGTGACATTAGATGCTCAAATCCTT GAGGAATGGAGAACCTGGGAAGACCCTGTGGTATTTCACCAACCACTGATATGGCTGGTGGATG AAAGATTTTCACAAAAATTGTTCCAAGCACAACAGCCGTAAGAGGACCAGAAACTCTTAGAAAA TGCAATCTTTTATTGGATTTTCCTGTATTTTTCATAATTAGAAGAATCGCAAGAAAAATTGATC CCATCACAAACGGAGGCCAGGAGAA
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.050450789

Conservation Information
Conserved circRNAs	NA
PMCS	0.050450789

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							166037641-166030400(-)
						
						Potential amino acid sequence
						
							MGSIFLAILLIMKNTGKSNKRLHFLRVSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSI
PQGFEHLMSLVPTAVLITGVAILESVGIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPA
TGSFSRSAVNHESGAKTGLSGIIMGIIIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMK
NTGKSNKRLHFLRVSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPT
AVLITGVAILESVGIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHES
GAKTGLSGIIMGIIIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMKNTGKSNKRLHFLR
VSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPTAVLITGVAILESV
GIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHESGAKTGLSGIIMGI
IIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMKNTGKSNKRLHFLRVSGPLTAVVLGTI
FVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPTAVLITGVAILESVGIAKALAAKNGYE
LDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHESGAKTGLSGIIMGIIIGGALLFMTPLF
TDIPQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	166037641-166030400(-)
Potential amino acid sequence	MGSIFLAILLIMKNTGKSNKRLHFLRVSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSI PQGFEHLMSLVPTAVLITGVAILESVGIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPA TGSFSRSAVNHESGAKTGLSGIIMGIIIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMK NTGKSNKRLHFLRVSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPT AVLITGVAILESVGIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHES GAKTGLSGIIMGIIIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMKNTGKSNKRLHFLR VSGPLTAVVLGTIFVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPTAVLITGVAILESV GIAKALAAKNGYELDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHESGAKTGLSGIIMGI IIGGALLFMTPLFTDIPQFSWPPFVMGSIFLAILLIMKNTGKSNKRLHFLRVSGPLTAVVLGTI FVKIFHPPAISVVGEIPQGLPRFSIPQGFEHLMSLVPTAVLITGVAILESVGIAKALAAKNGYE LDSNKELFGLGIANICGSFFSAYPATGSFSRSAVNHESGAKTGLSGIIMGIIIGGALLFMTPLF TDIPQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d005257_circ_g.7

Address

Any questions?

Supported by