Plant Circular RNA Database

Detail information of Zm00001d027665_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d027665_circ_g.7
					
						ID in PlantcircBase
						zma_circ_006408
					
						Alias
						zma_circ_0000219
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 10537437-10551008  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d027665						
					
						Parent gene annotation
						
							Protein SHOOT GRAVITROPISM 6
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d027665_circ_g.2 Zm00001d027665_circ_g.3 Zm00001d027665_circ_g.4 Zm00001d027665_circ_g.5 Zm00001d027665_circ_g.6 Zm00001d027665_circ_g.8 Zm00001d027665_circ_g.9 						
					
						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  
						
							GT-AG							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
						Zm00001d027665_T032:8
Zm00001d027665_T017:8
Zm00001d027665_T033:8
Zm00001d027665_T010:8
Zm00001d027665_T026:8
Zm00001d027665_T029:8
Zm00001d027665_T001:8
Zm00001d027665_T015:8
Zm00001d027665_T028:8
Zm00001d027665_T013:8
Zm00001d027665_T031:8
Zm00001d027665_T039:2
Zm00001d027665_T018:8
Zm00001d027665_T005:8
Zm00001d027665_T038:6
Zm00001d027665_T004:8
Zm00001d027665_T030:8
Zm00001d027665_T009:8
Zm00001d027665_T014:8
Zm00001d027665_T007:8
Zm00001d027665_T024:8
Zm00001d027665_T037:8
Zm00001d027665_T019:7
Zm00001d027665_T023:8
Zm00001d027665_T012:8

General Information
CircRNA Name	Zm00001d027665_circ_g.7
ID in PlantcircBase	zma_circ_006408
Alias	zma_circ_0000219
Organism	Zea mays
Position	chr1: 10537437-10551008 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d027665
Parent gene annotation	Protein SHOOT GRAVITROPISM 6
Parent gene strand	+
Alternative splicing	Zm00001d027665_circ_g.2 Zm00001d027665_circ_g.3 Zm00001d027665_circ_g.4 Zm00001d027665_circ_g.5 Zm00001d027665_circ_g.6 Zm00001d027665_circ_g.8 Zm00001d027665_circ_g.9
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	GT-AG 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	Zm00001d027665_T032:8 Zm00001d027665_T017:8 Zm00001d027665_T033:8 Zm00001d027665_T010:8 Zm00001d027665_T026:8 Zm00001d027665_T029:8 Zm00001d027665_T001:8 Zm00001d027665_T015:8 Zm00001d027665_T028:8 Zm00001d027665_T013:8 Zm00001d027665_T031:8 Zm00001d027665_T039:2 Zm00001d027665_T018:8 Zm00001d027665_T005:8 Zm00001d027665_T038:6 Zm00001d027665_T004:8 Zm00001d027665_T030:8 Zm00001d027665_T009:8 Zm00001d027665_T014:8 Zm00001d027665_T007:8 Zm00001d027665_T024:8 Zm00001d027665_T037:8 Zm00001d027665_T019:7 Zm00001d027665_T023:8 Zm00001d027665_T012:8

			
						 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  
						
							CATGTGATAAGATAAAACAGTCAGCAGATGCTTCAATTCAAGCTATTATCATGTTTATTATCAG
AAGAGGCAAGGAGCTACGTGAAGCTGATGTCTCGAGgtcgagctgttattagtgctgctgaaat
gggaatctcattcccactgaaacgaagagatcagttactggagtacgttttaactctaatgggt
agggatca

						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: 1012
Transcript exons: 10537437-10537582,10537791-10537871,10537975-10538075,10
549889-10550124,10550205-10550314,10550521-10550649,1055
0729-10550803,10550875-10551008
GTCGAGCTGTTATTAGTGCTGCTGAAATGGGAATCTCATTCCCACTGAAACGAAGAGATCAGTT
ACTGGAGTACGTTTTAACTCTAATGGGTAGGGATCAAAGTAATGATCTCACTGATTTCAACACT
GAGCTTTTGCACACACAGAGCCTTGCTTTAAGTGCCTGTACTACTCTTGTCTCGCTAGAACCAA
GATTGCCAATGGAAACAAGAAACCGTGTCATGAAGGCAACATTAGGTTTTTTTGCTTTGCCAAC
AGAGCCCTCAAGCATTGTTGAGAGTCTCGTAACAAACCTAATTATTCTGTTAGGTGCCATCCTG
CTTACAAGTGGTGAAGATGGTCGAAGTCGAGCAGAGCAGTTGCTGCATATTCTTAGGCAGCTTG
ATCCATATGTATCATCATCTCTGGAACACCAAAGAAGAAGAGGATGTGTTGCTGTACAGGAGGT
GTTAATAAAGTTTCGCAATCTTTGTTCTGGTGGATTCGGTGCATTGGGCTCCTATCCAACTTTC
ACAATGAATAAACAAATCGATCGAGGGACTAGGAGCTTGTCAAGTTTGCCATCTGCATTTGTGT
TGCCTAGTCGAGATTCTTTAAGCTTGGGAGAGAGGACAATGGCATACCTTCCTCGTTGTGCTGA
TACAGACACGGAAGTTAGGAAAGTTGCAATTCAGATCATTGCACTTTTCTTCGACATTTCATTG
TCACTTCCAAAGCAGAAGGCATATCCTAATGATATTGATCTGGAATCCTCGTATAGTGCTTTGT
CCTCCCTTGAGGAGTTAGTCTCTATTGTCAGAAGGGAGGCATCTGTTGATCAAACTGAACTATT
TCAGAGGGTTGTATCCTCAGTGTGTATTCTATTATCAAAGGATGAGCTGGTCGTCTTGCTACAC
TCTTGTACGTTGGCAACATGTGATAAGATAAAACAGTCAGCAGATGCTTCAATTCAAGCTATTA
TCATGTTTATTATCAGAAGAGGCAAGGAGCTACGTGAAGCTGATGTCTCGAG
						
						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	CATGTGATAAGATAAAACAGTCAGCAGATGCTTCAATTCAAGCTATTATCATGTTTATTATCAG AAGAGGCAAGGAGCTACGTGAAGCTGATGTCTCGAGgtcgagctgttattagtgctgctgaaat gggaatctcattcccactgaaacgaagagatcagttactggagtacgttttaactctaatgggt agggatca
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: 1012 Transcript exons: 10537437-10537582,10537791-10537871,10537975-10538075,10 549889-10550124,10550205-10550314,10550521-10550649,1055 0729-10550803,10550875-10551008 GTCGAGCTGTTATTAGTGCTGCTGAAATGGGAATCTCATTCCCACTGAAACGAAGAGATCAGTT ACTGGAGTACGTTTTAACTCTAATGGGTAGGGATCAAAGTAATGATCTCACTGATTTCAACACT GAGCTTTTGCACACACAGAGCCTTGCTTTAAGTGCCTGTACTACTCTTGTCTCGCTAGAACCAA GATTGCCAATGGAAACAAGAAACCGTGTCATGAAGGCAACATTAGGTTTTTTTGCTTTGCCAAC AGAGCCCTCAAGCATTGTTGAGAGTCTCGTAACAAACCTAATTATTCTGTTAGGTGCCATCCTG CTTACAAGTGGTGAAGATGGTCGAAGTCGAGCAGAGCAGTTGCTGCATATTCTTAGGCAGCTTG ATCCATATGTATCATCATCTCTGGAACACCAAAGAAGAAGAGGATGTGTTGCTGTACAGGAGGT GTTAATAAAGTTTCGCAATCTTTGTTCTGGTGGATTCGGTGCATTGGGCTCCTATCCAACTTTC ACAATGAATAAACAAATCGATCGAGGGACTAGGAGCTTGTCAAGTTTGCCATCTGCATTTGTGT TGCCTAGTCGAGATTCTTTAAGCTTGGGAGAGAGGACAATGGCATACCTTCCTCGTTGTGCTGA TACAGACACGGAAGTTAGGAAAGTTGCAATTCAGATCATTGCACTTTTCTTCGACATTTCATTG TCACTTCCAAAGCAGAAGGCATATCCTAATGATATTGATCTGGAATCCTCGTATAGTGCTTTGT CCTCCCTTGAGGAGTTAGTCTCTATTGTCAGAAGGGAGGCATCTGTTGATCAAACTGAACTATT TCAGAGGGTTGTATCCTCAGTGTGTATTCTATTATCAAAGGATGAGCTGGTCGTCTTGCTACAC TCTTGTACGTTGGCAACATGTGATAAGATAAAACAGTCAGCAGATGCTTCAATTCAAGCTATTA TCATGTTTATTATCAGAAGAGGCAAGGAGCTACGTGAAGCTGATGTCTCGAG
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
						0.055311132

Conservation Information
Conserved circRNAs	NA
PMCS	0.055311132

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10550937-10537449(+)
10537464-10537449(+)
						
						Potential amino acid sequence
						
							MLQFKLLSCLLSEEARSYVKLMSRGRAVISAAEMGISFPLKRRDQLLEYVLTLMGRDQSNDLTD
FNTELLHTQSLALSACTTLVSLEPRLPMETRNRVMKATLGFFALPTEPSSIVESLVTNLIILLG
AILLTSGEDGRSRAEQLLHILRQLDPYVSSSLEHQRRRGCVAVQEVLIKFRNLCSGGFGALGSY
PTFTMNKQIDRGTRSLSSLPSAFVLPSRDSLSLGERTMAYLPRCADTDTEVRKVAIQIIALFFD
ISLSLPKQKAYPNDIDLESSYSALSSLEELVSIVRREASVDQTELFQRVVSSVCILLSKDELVV
LLHSCTLATCDKIKQSADASIQAIIMFIIRRGKELREADVSRSSCY*(+)
MGISFPLKRRDQLLEYVLTLMGRDQSNDLTDFNTELLHTQSLALSACTTLVSLEPRLPMETRNR
VMKATLGFFALPTEPSSIVESLVTNLIILLGAILLTSGEDGRSRAEQLLHILRQLDPYVSSSLE
HQRRRGCVAVQEVLIKFRNLCSGGFGALGSYPTFTMNKQIDRGTRSLSSLPSAFVLPSRDSLSL
GERTMAYLPRCADTDTEVRKVAIQIIALFFDISLSLPKQKAYPNDIDLESSYSALSSLEELVSI
VRREASVDQTELFQRVVSSVCILLSKDELVVLLHSCTLATCDKIKQSADASIQAIIMFIIRRGK
ELREADVSRSSCY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10550937-10537449(+) 10537464-10537449(+)
Potential amino acid sequence	MLQFKLLSCLLSEEARSYVKLMSRGRAVISAAEMGISFPLKRRDQLLEYVLTLMGRDQSNDLTD FNTELLHTQSLALSACTTLVSLEPRLPMETRNRVMKATLGFFALPTEPSSIVESLVTNLIILLG AILLTSGEDGRSRAEQLLHILRQLDPYVSSSLEHQRRRGCVAVQEVLIKFRNLCSGGFGALGSY PTFTMNKQIDRGTRSLSSLPSAFVLPSRDSLSLGERTMAYLPRCADTDTEVRKVAIQIIALFFD ISLSLPKQKAYPNDIDLESSYSALSSLEELVSIVRREASVDQTELFQRVVSSVCILLSKDELVV LLHSCTLATCDKIKQSADASIQAIIMFIIRRGKELREADVSRSSCY(+) MGISFPLKRRDQLLEYVLTLMGRDQSNDLTDFNTELLHTQSLALSACTTLVSLEPRLPMETRNR VMKATLGFFALPTEPSSIVESLVTNLIILLGAILLTSGEDGRSRAEQLLHILRQLDPYVSSSLE HQRRRGCVAVQEVLIKFRNLCSGGFGALGSYPTFTMNKQIDRGTRSLSSLPSAFVLPSRDSLSL GERTMAYLPRCADTDTEVRKVAIQIIALFFDISLSLPKQKAYPNDIDLESSYSALSSLEELVSI VRREASVDQTELFQRVVSSVCILLSKDELVVLLHSCTLATCDKIKQSADASIQAIIMFIIRRGK ELREADVSRSSCY(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d027665_circ_g.7

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