Plant Circular RNA Database

Detail information of Zm00001d038587_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d038587_circ_g.1
					
						ID in PlantcircBase
						zma_circ_009143
					
						Alias
						Zm06circ00095
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 160550321-160559225  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d038587						
					
						Parent gene annotation
						
							Protein FRIGIDA-ESSENTIAL 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d038587_circ_g.2 Zm00001d038587_circ_g.3 						
					
						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
						Zm00001d038587_T028:5
Zm00001d038587_T003:4
Zm00001d038587_T008:5
Zm00001d038587_T031:5
Zm00001d038587_T020:5
Zm00001d038587_T025:5
Zm00001d038587_T013:1
Zm00001d038587_T015:1
Zm00001d038587_T016:3
Zm00001d038587_T030:5
Zm00001d038587_T026:6
Zm00001d038587_T004:4
Zm00001d038587_T034:3
Zm00001d038587_T014:1
Zm00001d038587_T033:3
Zm00001d038587_T022:1
Zm00001d038587_T023:5
Zm00001d038587_T007:5
Zm00001d038587_T011:5
Zm00001d038587_T035:4
Zm00001d038587_T002:5
Zm00001d038587_T010:5
Zm00001d038587_T017:5
Zm00001d038587_T032:4
Zm00001d038587_T009:4
Zm00001d038587_T005:5

General Information
CircRNA Name	Zm00001d038587_circ_g.1
ID in PlantcircBase	zma_circ_009143
Alias	Zm06circ00095
Organism	Zea mays
Position	chr6: 160550321-160559225 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d038587
Parent gene annotation	Protein FRIGIDA-ESSENTIAL 1
Parent gene strand	-
Alternative splicing	Zm00001d038587_circ_g.2 Zm00001d038587_circ_g.3
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	Zm00001d038587_T028:5 Zm00001d038587_T003:4 Zm00001d038587_T008:5 Zm00001d038587_T031:5 Zm00001d038587_T020:5 Zm00001d038587_T025:5 Zm00001d038587_T013:1 Zm00001d038587_T015:1 Zm00001d038587_T016:3 Zm00001d038587_T030:5 Zm00001d038587_T026:6 Zm00001d038587_T004:4 Zm00001d038587_T034:3 Zm00001d038587_T014:1 Zm00001d038587_T033:3 Zm00001d038587_T022:1 Zm00001d038587_T023:5 Zm00001d038587_T007:5 Zm00001d038587_T011:5 Zm00001d038587_T035:4 Zm00001d038587_T002:5 Zm00001d038587_T010:5 Zm00001d038587_T017:5 Zm00001d038587_T032:4 Zm00001d038587_T009:4 Zm00001d038587_T005:5

			
						 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  
						
							ATGAGCACATGGTTAATGTTGTCAGCTTTGTTCAAATATTTATCAACATCACGAGATTGCATCA
TTGGTCTCTTCTCAGCAACAGTCACTCCACAAAAACgtttattgtcctctttaattcctcctcg
cttccatctccagctttcctgatgacaattcagcatttattaacacttcgtagaagattatttt
gacatgta

									
								

					

						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: 2133
Transcript exons: 160550321-160550555,160557014-160557163,160557237-160558
621,160558706-160558881,160559039-160559225
GTTTATTGTCCTCTTTAATTCCTCCTCGCTTCCATCTCCAGCTTTCCTGATGACAATTCAGCAT
TTATTAACACTTCGTAGAAGATTATTTTGACATGTAAGAACCTTATCAACTACAGGATAGATAT
ACGTCCTTTGCCAAGCTTATCATCAGCAATAACATCAGATGCACCAATATCTGGAACTTCGCTG
ACTACTTGCCTCAAGAAGTCATGGACATACATGTTTGTATGAACAATATTAACTTGTTGGGCCT
ACAAATGAAGGTTAACCAGATTGGTAGGACAGAAGGTTCAAGCTGTCATCACCATTAAGCTCAA
GCTCCCATCTCAGAGCTGCTGTATTTGATGGTTGGATGACATGTACTGTGCCTATCAACATATG
CCTTCACAAGTTTTTCTATCTTTGGTCCACATGTGGCTATGTACTTCGTAATCAACTCTTCAGT
AGTTGGTACTTGATTTGGCTCAATGGAGTCCACAACCTTCTCGACAGATTTTCTCACTACCAGT
TTATGAGCATCTTTACTCAGATTACCTTTTTTCCATATTGGTTTGACCAACTCCTTTATATGTT
CTGCCAAATGAAAACGGAAATCCCTTGTTTTCTCATTGTAATCAACTGCATCCTTTTTTCTGTC
ACAAGCTTTCACCTTGATAGTATCATCCAGGCTAGAGCTGCATCCTCTATCAGGAGCAATAAAG
TAAGCAGGTTCATTTGATCCTTTGGCAGTTATATTCCTGGTCAATTTGTCATTGCAATTCAAGG
ATTTATCAGTAACTGCGTACTGATCTGTATGCTGACTTGTAATGTTGCAGGATATAGTGGAGGG
CTTGAGATTATTTGTATTCCCAACTTTAGGAGGTTCAACATAGTCAACAAATGGATCATATTGA
CTTTCTGAAGCTGTTGTGCTATCAGGAAAACTAAAAGAAGGTACAAAAGGCACTGATGTTTCCC
AGACCTCATTCTTAATTGGAGAGTGGGGCCCAACTGGCGTCATAGAAGGTTCAGGTTTACTGCT
CACAAGCAATGCGGGTCCAGAACTAGAAGTACCATAGCCCTTTCCAACATCAAGGCATCTATGG
AGATCAGCCTTCTCAATATCAGATGTGAACAGATGATGGGACTGTATTCCCAGATGAGAAGTTG
CTAGAAGAGATGGGCTACCGAAAGTATGTTCAGAGGTAGCAAAGCAAGGATTTCTGGATCCTGT
TAAGCTATGTGAGCTGTATGAAGCATGGCATGAGTGATGTTCTTTCTGATGTATGTTAGGAATA
GTATTTGTCACTCCACCATATGCTGACAGCTTCTCACTGAGCTGGAGAGGATCAGATGAAATAG
ACAAGCCAAATGATTTATATGGATAATCTGAAAGGTAAGTTCTTGAGACATGGGAATCACTAAC
ACTGCTTTCCTTGTCTATGTCAAACTGAAAAATACCTCCATCTAATCTTGGATAGGTACCTCCA
GCATCCAAATAGTTTTCAGCAGCCACATCAATATGGTGTCCCATGAAACGTTTGTTGTTCTTCT
CATGAACTAATGGATTCTGAGCCAATGAATGACCAATGCTGACGGGCATCCTTTGTGAAACCCC
AGGAATGGGAGAGCTGTGTTTACCAGCAAGATGTACCGACATCTGATTATCTTTGCCAAATGCA
TAAATAAGATTCCGACACATTTCATCTTTTGACAAACCCTCTGAATCCTTGAACTGATGCACTT
TCAAGTCAGATATATGTTGTACTTGAGAACCTCCTTCAGAACCTCTATGATTTCCAGAACCAGC
TGGTGCGAGCAGACCAGTCTTTGCAGAACCAAATCCCTCCCTTTCATGAAGAGAGATGCAACTC
TTTCCTTTCTTGCACCGACCTTGAGCATCAAAGGTACATATTTCGATGGGCCTTCTGATTTTGT
TGTTCATATTTTCTCCAGGGGATGAGCTCTGAGCATCAGAATCTAGCCGAGTCCCCAAACCATG
TGTACCATGCAGGCAGTGACCACCAATTTTAGAAATGTCGCCAGAGTTCATGAGCACATGGTTA
ATGTTGTCAGCTTTGTTCAAATATTTATCAACATCACGAGATTGCATCATTGGTCTCTTCTCAG
CAACAGTCACTCCACAAAAAC
						
					

						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	ATGAGCACATGGTTAATGTTGTCAGCTTTGTTCAAATATTTATCAACATCACGAGATTGCATCA TTGGTCTCTTCTCAGCAACAGTCACTCCACAAAAACgtttattgtcctctttaattcctcctcg cttccatctccagctttcctgatgacaattcagcatttattaacacttcgtagaagattatttt gacatgta
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: 2133 Transcript exons: 160550321-160550555,160557014-160557163,160557237-160558 621,160558706-160558881,160559039-160559225 GTTTATTGTCCTCTTTAATTCCTCCTCGCTTCCATCTCCAGCTTTCCTGATGACAATTCAGCAT TTATTAACACTTCGTAGAAGATTATTTTGACATGTAAGAACCTTATCAACTACAGGATAGATAT ACGTCCTTTGCCAAGCTTATCATCAGCAATAACATCAGATGCACCAATATCTGGAACTTCGCTG ACTACTTGCCTCAAGAAGTCATGGACATACATGTTTGTATGAACAATATTAACTTGTTGGGCCT ACAAATGAAGGTTAACCAGATTGGTAGGACAGAAGGTTCAAGCTGTCATCACCATTAAGCTCAA GCTCCCATCTCAGAGCTGCTGTATTTGATGGTTGGATGACATGTACTGTGCCTATCAACATATG CCTTCACAAGTTTTTCTATCTTTGGTCCACATGTGGCTATGTACTTCGTAATCAACTCTTCAGT AGTTGGTACTTGATTTGGCTCAATGGAGTCCACAACCTTCTCGACAGATTTTCTCACTACCAGT TTATGAGCATCTTTACTCAGATTACCTTTTTTCCATATTGGTTTGACCAACTCCTTTATATGTT CTGCCAAATGAAAACGGAAATCCCTTGTTTTCTCATTGTAATCAACTGCATCCTTTTTTCTGTC ACAAGCTTTCACCTTGATAGTATCATCCAGGCTAGAGCTGCATCCTCTATCAGGAGCAATAAAG TAAGCAGGTTCATTTGATCCTTTGGCAGTTATATTCCTGGTCAATTTGTCATTGCAATTCAAGG ATTTATCAGTAACTGCGTACTGATCTGTATGCTGACTTGTAATGTTGCAGGATATAGTGGAGGG CTTGAGATTATTTGTATTCCCAACTTTAGGAGGTTCAACATAGTCAACAAATGGATCATATTGA CTTTCTGAAGCTGTTGTGCTATCAGGAAAACTAAAAGAAGGTACAAAAGGCACTGATGTTTCCC AGACCTCATTCTTAATTGGAGAGTGGGGCCCAACTGGCGTCATAGAAGGTTCAGGTTTACTGCT CACAAGCAATGCGGGTCCAGAACTAGAAGTACCATAGCCCTTTCCAACATCAAGGCATCTATGG AGATCAGCCTTCTCAATATCAGATGTGAACAGATGATGGGACTGTATTCCCAGATGAGAAGTTG CTAGAAGAGATGGGCTACCGAAAGTATGTTCAGAGGTAGCAAAGCAAGGATTTCTGGATCCTGT TAAGCTATGTGAGCTGTATGAAGCATGGCATGAGTGATGTTCTTTCTGATGTATGTTAGGAATA GTATTTGTCACTCCACCATATGCTGACAGCTTCTCACTGAGCTGGAGAGGATCAGATGAAATAG ACAAGCCAAATGATTTATATGGATAATCTGAAAGGTAAGTTCTTGAGACATGGGAATCACTAAC ACTGCTTTCCTTGTCTATGTCAAACTGAAAAATACCTCCATCTAATCTTGGATAGGTACCTCCA GCATCCAAATAGTTTTCAGCAGCCACATCAATATGGTGTCCCATGAAACGTTTGTTGTTCTTCT CATGAACTAATGGATTCTGAGCCAATGAATGACCAATGCTGACGGGCATCCTTTGTGAAACCCC AGGAATGGGAGAGCTGTGTTTACCAGCAAGATGTACCGACATCTGATTATCTTTGCCAAATGCA TAAATAAGATTCCGACACATTTCATCTTTTGACAAACCCTCTGAATCCTTGAACTGATGCACTT TCAAGTCAGATATATGTTGTACTTGAGAACCTCCTTCAGAACCTCTATGATTTCCAGAACCAGC TGGTGCGAGCAGACCAGTCTTTGCAGAACCAAATCCCTCCCTTTCATGAAGAGAGATGCAACTC TTTCCTTTCTTGCACCGACCTTGAGCATCAAAGGTACATATTTCGATGGGCCTTCTGATTTTGT TGTTCATATTTTCTCCAGGGGATGAGCTCTGAGCATCAGAATCTAGCCGAGTCCCCAAACCATG TGTACCATGCAGGCAGTGACCACCAATTTTAGAAATGTCGCCAGAGTTCATGAGCACATGGTTA ATGTTGTCAGCTTTGTTCAAATATTTATCAACATCACGAGATTGCATCATTGGTCTCTTCTCAG CAACAGTCACTCCACAAAAAC
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
						0.26133809

Conservation Information
Conserved circRNAs	NA
PMCS	0.26133809

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							160559075-160550411(+)
160559112-160550367(+)
160550386-160557097(-)
						
						Potential amino acid sequence
						
							MCTMQAVTTNFRNVARVHEHMVNVVSFVQIFINITRLHHWSLLSNSHSTKTFIVLFNSSSLPSP
AFLMTIQHLLTLRRRLF*(+)
MSPEFMSTWLMLSALFKYLSTSRDCIIGLFSATVTPQKRLLSSLIPPRFHLQLS*(+)
MLNCHQESWRWKRGGIKEDNKRFCGVTVAEKRPMMQSRDVDKYLNKADNINHVLMNSGDISKIG
GHCLHGTHGLGTRLDSDAQSSSPGENMNNKIRRPIEICTFDAQGRCKKGKSCISLHEREGFGSA
KTGLLAPAGSGNHRGSEGGSQVQHISDLKVHQFKDSEGLSKDEMCRNLIYAFGKDNQMSVHLAG
KHSSPIPGVSQRMPVSIGHSLAQNPLVHEKNNKRFMGHHIDVAAENYLDAGGTYPRLDGGIFQF
DIDKESSVSDSHVSRTYLSDYPYKSFGLSISSDPLQLSEKLSAYGGVTNTIPNIHQKEHHSCHA
SYSSHSLTGSRNPCFATSEHTFGSPSLLATSHLGIQSHHLFTSDIEKADLHRCLDVGKGYGTSS
SGPALLVSSKPEPSMTPVGPHSPIKNEVWETSVPFVPSFSFPDSTTASESQYDPFVDYVEPPKV
GNTNNLKPSTISCNITSQHTDQYAVTDKSLNCNDKLTRNITAKGSNEPAYFIAPDRGCSSSLDD
TIKVKACDRKKDAVDYNEKTRDFRFHLAEHIKELVKPIWKKGNLSKDAHKLVVRKSVEKVVDSI
EPNQVPTTEELITKYIATCGPKIEKLVKAYVDRHSTCHPTIKYSSSEMGA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	160559075-160550411(+) 160559112-160550367(+) 160550386-160557097(-)
Potential amino acid sequence	MCTMQAVTTNFRNVARVHEHMVNVVSFVQIFINITRLHHWSLLSNSHSTKTFIVLFNSSSLPSP AFLMTIQHLLTLRRRLF(+) MSPEFMSTWLMLSALFKYLSTSRDCIIGLFSATVTPQKRLLSSLIPPRFHLQLS(+) MLNCHQESWRWKRGGIKEDNKRFCGVTVAEKRPMMQSRDVDKYLNKADNINHVLMNSGDISKIG GHCLHGTHGLGTRLDSDAQSSSPGENMNNKIRRPIEICTFDAQGRCKKGKSCISLHEREGFGSA KTGLLAPAGSGNHRGSEGGSQVQHISDLKVHQFKDSEGLSKDEMCRNLIYAFGKDNQMSVHLAG KHSSPIPGVSQRMPVSIGHSLAQNPLVHEKNNKRFMGHHIDVAAENYLDAGGTYPRLDGGIFQF DIDKESSVSDSHVSRTYLSDYPYKSFGLSISSDPLQLSEKLSAYGGVTNTIPNIHQKEHHSCHA SYSSHSLTGSRNPCFATSEHTFGSPSLLATSHLGIQSHHLFTSDIEKADLHRCLDVGKGYGTSS SGPALLVSSKPEPSMTPVGPHSPIKNEVWETSVPFVPSFSFPDSTTASESQYDPFVDYVEPPKV GNTNNLKPSTISCNITSQHTDQYAVTDKSLNCNDKLTRNITAKGSNEPAYFIAPDRGCSSSLDD TIKVKACDRKKDAVDYNEKTRDFRFHLAEHIKELVKPIWKKGNLSKDAHKLVVRKSVEKVVDSI EPNQVPTTEELITKYIATCGPKIEKLVKAYVDRHSTCHPTIKYSSSEMGA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d038587_circ_g.1

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