Plant Circular RNA Database

Detail information of Zm00001d009750_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d009750_circ_g.5
					
						ID in PlantcircBase
						zma_circ_009636
					
						Alias
						zma_circ_0003003
					
						Organism
						
							Zea mays						
					
						Position
						
							chr8: 79642409-79643721  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d009750						
					
						Parent gene annotation
						
							Chromatin modification-related protein EAF1 B
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d009750_T009:5
Zm00001d009750_T006:5
Zm00001d009750_T007:5
Zm00001d009750_T004:5
Zm00001d009750_T002:5
Zm00001d009750_T003:5
Zm00001d009750_T001:2
Zm00001d009750_T008:5
Zm00001d009750_T005:5

General Information
CircRNA Name	Zm00001d009750_circ_g.5
ID in PlantcircBase	zma_circ_009636
Alias	zma_circ_0003003
Organism	Zea mays
Position	chr8: 79642409-79643721 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d009750
Parent gene annotation	Chromatin modification-related protein EAF1 B
Parent gene strand	-
Alternative splicing	NA
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	Zm00001d009750_T009:5 Zm00001d009750_T006:5 Zm00001d009750_T007:5 Zm00001d009750_T004:5 Zm00001d009750_T002:5 Zm00001d009750_T003:5 Zm00001d009750_T001:2 Zm00001d009750_T008:5 Zm00001d009750_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  
						
							AACAATGTATAACATATTTAAAGTACTGATACGTTTTACCTGCAACAGAATCACACGCAGATGC
CTCATAGTCATCGTTGAGCTCAGCATTGCCATCTTCctttagtgctttgcattttctcccacga
tccctattagcaatgatctttataaatctagcaggatgtgccatgttgctcatctgtgatgcaa
cagaagtt

									
								

					

						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: 912
Transcript exons: 79642409-79642578,79642714-79642768,79642866-79642931,79
643016-79643575,79643661-79643721
CTTTAGTGCTTTGCATTTTCTCCCACGATCCCTATTAGCAATGATCTTTATAAATCTAGCAGGA
TGTGCCATGTTGCTCATCTGTGATGCAACAGAAGTTTCTTGTGAAATATCTATCCCTTGCTTCC
CCATTTTAAGCTTCTTAGAAGCATGTTGACCACCATATGCAACTTTGTTTCCATTTGAACCATA
TTGGTGCACATCTGTTCTCTTCTTGAGATATTCCTGCTCATATTTATTAACCAAGTCAACTTGC
ATTTGCTTTCTTGGATCATAAATATGGCCCTGAAACTTTGCAGAAGTTGGCACATACAAATTGG
CTGCATTTTGAGCAATTTTGTATCCTGAGTTCTTCAGTTTTTTCTTGTTGTTGACTTTAGTGCA
CATTTCACCAGCATCATAAGGCAGTTGTCTATCAGAATCAACTGTAGATTCAAAATCCATGTTC
CTCCACGGCAAAGACTCACTATGCAATGAACTTTGATCATCTTGGTAGGAGTTTGTGTTGCCAC
TTGAGAAATCTTGGGGCGGTACACTAGCACCAGCATGAAACGGGCTTACAACTTGTTGCCTTGC
AGCTGTGCGTGTGCGCTTTGGAGGAATTGCAAGGAAAGAAGTAGGTCTTTTGCCATTTGATAAC
AATGGTTGGTTCCTTGACTTGCTTTCCATGCATGGTTGATAAGGCACATAGGTACCAATTTCAT
ATGGCCTAGCAAGGCTAATCCTTTGTGGCATTACATGTTTCTTCTTGTGAACCATATTCGATAT
GGAACCACCAACATATGCTTTAGGAGAAAGAAAAGTACATGTCTCGCCTTCATCCTCCTCGTAT
GCATTCTCCTGGGGCAAATCTGCAACAGAATCACACGCAGATGCCTCATAGTCATCGTTGAGCT
CAGCATTGCCATCTTC
						
					

						Genomic sequence
						
							CTTTAGTGCTTTGCATTTTCTCCCACGATCCCTATTAGCAATGATCTTTATAAATCTAGCAGGA
TGTGCCATGTTGCTCATCTGTGATGCAACAGAAGTTTCTTGTGAAATATCTATCCCTTGCTTCC
CCATTTTAAGCTTCTTAGAAGCATGTTGACCACCATATGCAACTATGGAATAAATCAAAACACA
ATGGTCAGAGCCATTTGTCATCTCCCAAATATATCAAGAGCATGTAGATGTAGCTAATCCATGT
ATGGCATAGGTGATGTGTGCGCTGTATATAAAAATGAGGATGAAACTACCTTTGTTTCCATTTG
AACCATATTGGTGCACATCTGTTCTCTTCTTGAGATATTCCTTGTGAACAGAAATATTGAAAAA
AAGTTAGGGCTAACAACCAGTATGTCAGCATTAATATCAACAGACAAAGAGAAAGGTGGTAGGT
AGGTTGAACCTGCTCATATTTATTAACCAAGTCAACTTGCATTTGCTTTCTTGGATCATAAATA
TGGCCCTGAAACTTTAGGAGAATAAATTTGCCTCAAGGAAACATTAAAAATACCAGCAGTAACA
AAGGAGCGCCAATGAAGCTTGAGAAATGAACCTTTGCAGAAGTTGGCACATACAAATTGGCTGC
ATTTTGAGCAATTTTGTATCCTGAGTTCTTCAGTTTTTTCTTGTTGTTGACTTTAGTGCACATT
TCACCAGCATCATAAGGCAGTTGTCTATCAGAATCAACTGTAGATTCAAAATCCATGTTCCTCC
ACGGCAAAGACTCACTATGCAATGAACTTTGATCATCTTGGTAGGAGTTTGTGTTGCCACTTGA
GAAATCTTGGGGCGGTACACTAGCACCAGCATGAAACGGGCTTACAACTTGTTGCCTTGCAGCT
GTGCGTGTGCGCTTTGGAGGAATTGCAAGGAAAGAAGTAGGTCTTTTGCCATTTGATAACAATG
GTTGGTTCCTTGACTTGCTTTCCATGCATGGTTGATAAGGCACATAGGTACCAATTTCATATGG
CCTAGCAAGGCTAATCCTTTGTGGCATTACATGTTTCTTCTTGTGAACCATATTCGATATGGAA
CCACCAACATATGCTTTAGGAGAAAGAAAAGTACATGTCTCGCCTTCATCCTCCTCGTATGCAT
TCTCCTGGGGCAAATCTGAACAAACTGTGTAGAAGTTAGAACAGATATGAATGAAGTGCATAAC
AATGTATAACATATTTAAAGTACTGATACGTTTTACCTGCAACAGAATCACACGCAGATGCCTC
ATAGTCATCGTTGAGCTCAGCATTGCCATCTTC
						
					

			
		

Sequences
Splice junction sequence	AACAATGTATAACATATTTAAAGTACTGATACGTTTTACCTGCAACAGAATCACACGCAGATGC CTCATAGTCATCGTTGAGCTCAGCATTGCCATCTTCctttagtgctttgcattttctcccacga tccctattagcaatgatctttataaatctagcaggatgtgccatgttgctcatctgtgatgcaa cagaagtt
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: 912 Transcript exons: 79642409-79642578,79642714-79642768,79642866-79642931,79 643016-79643575,79643661-79643721 CTTTAGTGCTTTGCATTTTCTCCCACGATCCCTATTAGCAATGATCTTTATAAATCTAGCAGGA TGTGCCATGTTGCTCATCTGTGATGCAACAGAAGTTTCTTGTGAAATATCTATCCCTTGCTTCC CCATTTTAAGCTTCTTAGAAGCATGTTGACCACCATATGCAACTTTGTTTCCATTTGAACCATA TTGGTGCACATCTGTTCTCTTCTTGAGATATTCCTGCTCATATTTATTAACCAAGTCAACTTGC ATTTGCTTTCTTGGATCATAAATATGGCCCTGAAACTTTGCAGAAGTTGGCACATACAAATTGG CTGCATTTTGAGCAATTTTGTATCCTGAGTTCTTCAGTTTTTTCTTGTTGTTGACTTTAGTGCA CATTTCACCAGCATCATAAGGCAGTTGTCTATCAGAATCAACTGTAGATTCAAAATCCATGTTC CTCCACGGCAAAGACTCACTATGCAATGAACTTTGATCATCTTGGTAGGAGTTTGTGTTGCCAC TTGAGAAATCTTGGGGCGGTACACTAGCACCAGCATGAAACGGGCTTACAACTTGTTGCCTTGC AGCTGTGCGTGTGCGCTTTGGAGGAATTGCAAGGAAAGAAGTAGGTCTTTTGCCATTTGATAAC AATGGTTGGTTCCTTGACTTGCTTTCCATGCATGGTTGATAAGGCACATAGGTACCAATTTCAT ATGGCCTAGCAAGGCTAATCCTTTGTGGCATTACATGTTTCTTCTTGTGAACCATATTCGATAT GGAACCACCAACATATGCTTTAGGAGAAAGAAAAGTACATGTCTCGCCTTCATCCTCCTCGTAT GCATTCTCCTGGGGCAAATCTGCAACAGAATCACACGCAGATGCCTCATAGTCATCGTTGAGCT CAGCATTGCCATCTTC
Genomic sequence	CTTTAGTGCTTTGCATTTTCTCCCACGATCCCTATTAGCAATGATCTTTATAAATCTAGCAGGA TGTGCCATGTTGCTCATCTGTGATGCAACAGAAGTTTCTTGTGAAATATCTATCCCTTGCTTCC CCATTTTAAGCTTCTTAGAAGCATGTTGACCACCATATGCAACTATGGAATAAATCAAAACACA ATGGTCAGAGCCATTTGTCATCTCCCAAATATATCAAGAGCATGTAGATGTAGCTAATCCATGT ATGGCATAGGTGATGTGTGCGCTGTATATAAAAATGAGGATGAAACTACCTTTGTTTCCATTTG AACCATATTGGTGCACATCTGTTCTCTTCTTGAGATATTCCTTGTGAACAGAAATATTGAAAAA AAGTTAGGGCTAACAACCAGTATGTCAGCATTAATATCAACAGACAAAGAGAAAGGTGGTAGGT AGGTTGAACCTGCTCATATTTATTAACCAAGTCAACTTGCATTTGCTTTCTTGGATCATAAATA TGGCCCTGAAACTTTAGGAGAATAAATTTGCCTCAAGGAAACATTAAAAATACCAGCAGTAACA AAGGAGCGCCAATGAAGCTTGAGAAATGAACCTTTGCAGAAGTTGGCACATACAAATTGGCTGC ATTTTGAGCAATTTTGTATCCTGAGTTCTTCAGTTTTTTCTTGTTGTTGACTTTAGTGCACATT TCACCAGCATCATAAGGCAGTTGTCTATCAGAATCAACTGTAGATTCAAAATCCATGTTCCTCC ACGGCAAAGACTCACTATGCAATGAACTTTGATCATCTTGGTAGGAGTTTGTGTTGCCACTTGA GAAATCTTGGGGCGGTACACTAGCACCAGCATGAAACGGGCTTACAACTTGTTGCCTTGCAGCT GTGCGTGTGCGCTTTGGAGGAATTGCAAGGAAAGAAGTAGGTCTTTTGCCATTTGATAACAATG GTTGGTTCCTTGACTTGCTTTCCATGCATGGTTGATAAGGCACATAGGTACCAATTTCATATGG CCTAGCAAGGCTAATCCTTTGTGGCATTACATGTTTCTTCTTGTGAACCATATTCGATATGGAA CCACCAACATATGCTTTAGGAGAAAGAAAAGTACATGTCTCGCCTTCATCCTCCTCGTATGCAT TCTCCTGGGGCAAATCTGAACAAACTGTGTAGAAGTTAGAACAGATATGAATGAAGTGCATAAC AATGTATAACATATTTAAAGTACTGATACGTTTTACCTGCAACAGAATCACACGCAGATGCCTC ATAGTCATCGTTGAGCTCAGCATTGCCATCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.160248838

Conservation Information
Conserved circRNAs	NA
PMCS	0.160248838

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							79643464-79642411(+)
79643485-79642411(-)
						
						Potential amino acid sequence
						
							MFLLVNHIRYGTTNICFRRKKSTCLAFILLVCILLGQICNRITRRCLIVIVELSIAIFL*(+)
MVHKKKHVMPQRISLARPYEIGTYVPYQPCMESKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQ
QVVSPFHAGASVPPQDFSSGNTNSYQDDQSSLHSESLPWRNMDFESTVDSDRQLPYDAGEMCTK
VNNKKKLKNSGYKIAQNAANLYVPTSAKFQGHIYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGS
NGNKVAYGGQHASKKLKMGKQGIDISQETSVASQMSNMAHPARFIKIIANRDRGRKCKALKEDG
NAELNDDYEASACDSVADLPQENAYEEDEGETCTFLSPKAYVGGSISNMVHKKKHVMPQRISLA
RPYEIGTYVPYQPCMESKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQQVVSPFHAGASVPPQD
FSSGNTNSYQDDQSSLHSESLPWRNMDFESTVDSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQ
NAANLYVPTSAKFQGHIYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGSNGNKVAYGGQHASKKL
KMGKQGIDISQETSVASQMSNMAHPARFIKIIANRDRGRKCKALKEDGNAELNDDYEASACDSV
ADLPQENAYEEDEGETCTFLSPKAYVGGSISNMVHKKKHVMPQRISLARPYEIGTYVPYQPCME
SKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQQVVSPFHAGASVPPQDFSSGNTNSYQDDQSSL
HSESLPWRNMDFESTVDSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQNAANLYVPTSAKFQGH
IYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGSNGNKVAYGGQHASKKLKMGKQGIDISQETSVA
SQMSNMAHPARFIKIIANRDRGRKCKALKEDGNAELNDDYEASACDSVADLPQENAYEEDEGET
CTFLSPKAYVGGSISNMVHKKKHVMPQRISLARPYEIGTYVPYQPCMESKSRNQPLLSNGKRPT
SFLAIPPKRTRTAARQQVVSPFHAGASVPPQDFSSGNTNSYQDDQSSLHSESLPWRNMDFESTV
DSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQNAANLYVPTSAKFQGHIYDPRKQMQVDLVNKY
EQEYLKKRTDVHQYGSNGNKVAYGGQHASKKLKMGKQGIDISQETSVASQMSNMAHPARFIKII
ANRDRGRKCKALK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	79643464-79642411(+) 79643485-79642411(-)
Potential amino acid sequence	MFLLVNHIRYGTTNICFRRKKSTCLAFILLVCILLGQICNRITRRCLIVIVELSIAIFL*(+) MVHKKKHVMPQRISLARPYEIGTYVPYQPCMESKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQ QVVSPFHAGASVPPQDFSSGNTNSYQDDQSSLHSESLPWRNMDFESTVDSDRQLPYDAGEMCTK VNNKKKLKNSGYKIAQNAANLYVPTSAKFQGHIYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGS NGNKVAYGGQHASKKLKMGKQGIDISQETSVASQMSNMAHPARFIKIIANRDRGRKCKALKEDG NAELNDDYEASACDSVADLPQENAYEEDEGETCTFLSPKAYVGGSISNMVHKKKHVMPQRISLA RPYEIGTYVPYQPCMESKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQQVVSPFHAGASVPPQD FSSGNTNSYQDDQSSLHSESLPWRNMDFESTVDSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQ NAANLYVPTSAKFQGHIYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGSNGNKVAYGGQHASKKL KMGKQGIDISQETSVASQMSNMAHPARFIKIIANRDRGRKCKALKEDGNAELNDDYEASACDSV ADLPQENAYEEDEGETCTFLSPKAYVGGSISNMVHKKKHVMPQRISLARPYEIGTYVPYQPCME SKSRNQPLLSNGKRPTSFLAIPPKRTRTAARQQVVSPFHAGASVPPQDFSSGNTNSYQDDQSSL HSESLPWRNMDFESTVDSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQNAANLYVPTSAKFQGH IYDPRKQMQVDLVNKYEQEYLKKRTDVHQYGSNGNKVAYGGQHASKKLKMGKQGIDISQETSVA SQMSNMAHPARFIKIIANRDRGRKCKALKEDGNAELNDDYEASACDSVADLPQENAYEEDEGET CTFLSPKAYVGGSISNMVHKKKHVMPQRISLARPYEIGTYVPYQPCMESKSRNQPLLSNGKRPT SFLAIPPKRTRTAARQQVVSPFHAGASVPPQDFSSGNTNSYQDDQSSLHSESLPWRNMDFESTV DSDRQLPYDAGEMCTKVNNKKKLKNSGYKIAQNAANLYVPTSAKFQGHIYDPRKQMQVDLVNKY EQEYLKKRTDVHQYGSNGNKVAYGGQHASKKLKMGKQGIDISQETSVASQMSNMAHPARFIKII ANRDRGRKCKALK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d009750_circ_g.5

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