Plant Circular RNA Database

Detail information of Zm00001d027487_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d027487_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006377
					
						Alias
						Zm01circ00021
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 6325269-6327079  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d027487						
					
						Parent gene annotation
						
							Exosome complex exonuclease RRP44 homolog A
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d027487_T024:8
Zm00001d027487_T006:8
Zm00001d027487_T004:8
Zm00001d027487_T023:8
Zm00001d027487_T007:8
Zm00001d027487_T022:8
Zm00001d027487_T019:8
Zm00001d027487_T009:8
Zm00001d027487_T026:8
Zm00001d027487_T011:8
Zm00001d027487_T013:8
Zm00001d027487_T002:8
Zm00001d027487_T015:8
Zm00001d027487_T029:8
Zm00001d027487_T020:8
Zm00001d027487_T008:8
Zm00001d027487_T028:3
Zm00001d027487_T005:8
Zm00001d027487_T017:8
Zm00001d027487_T027:8
Zm00001d027487_T010:8

General Information
CircRNA Name	Zm00001d027487_circ_g.2
ID in PlantcircBase	zma_circ_006377
Alias	Zm01circ00021
Organism	Zea mays
Position	chr1: 6325269-6327079 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d027487
Parent gene annotation	Exosome complex exonuclease RRP44 homolog A
Parent gene strand	-
Alternative splicing	NA
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	Zm00001d027487_T024:8 Zm00001d027487_T006:8 Zm00001d027487_T004:8 Zm00001d027487_T023:8 Zm00001d027487_T007:8 Zm00001d027487_T022:8 Zm00001d027487_T019:8 Zm00001d027487_T009:8 Zm00001d027487_T026:8 Zm00001d027487_T011:8 Zm00001d027487_T013:8 Zm00001d027487_T002:8 Zm00001d027487_T015:8 Zm00001d027487_T029:8 Zm00001d027487_T020:8 Zm00001d027487_T008:8 Zm00001d027487_T028:3 Zm00001d027487_T005:8 Zm00001d027487_T017:8 Zm00001d027487_T027:8 Zm00001d027487_T010:8

			
						 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  
						
							TGTGTGTGGAACCACATAACCAGGTTAACAAAATCATTCCATACCTCTGTCATTACGATCATTA
GAGCTCTCCCCAACCATGTCTTTGACGTAAGTATCCgaactccaacttcaaagttcccatttgg
aagtagtgtgcaatgtagtgcatcatcaatgtctcgacaacctataaagcagttgaagtataac
tgtctaag

									
								

					

						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
						
							GAACTCCAACTTCAAAGTTCCCATTTGGAAGTAGTGTGCAATGTAGTGCATCATCAATGTCTCG
ACAACCTATAAAGCAGTTGAAGTATAACTGTCTAAGGGTTTGACCCAGGTACATAAAATACCAA
AAGATTGCAGGTATCCTGATTAAATTACCTGGTGGATCCACACTAAAGACTCTCACTTGGCGTA
AGTCTTGTCTATTAGGATTAGCCAGATCTTCTGGTGATAATGTCCAAGGTAAAGGTGGCAAACA
AGCAAGGACTTGTGTAGAGAAAGGCCTGGTGTTGATATCATTCTCTATTAAGACAACCTGCTTC
ATGCATAAACACCATTAACATATTACAATCAAAAGTATGCCCTTTAGATGCAAGTATTTCTAAG
ATACGGTTTATGCAACTCTAAATTTTAGTACACTTGCCTCTGTTTCAGTTTCTTTGTCACCAAT
ATCTCCAATGGTTCGTACATAGTGTCCTGATGGATATCGAGACAAAACATCCCATGAATCAACC
GCGACAACAATTCTTTTGTTCACAAGATTCTCAAGCTGCCTGGTTTGAATTCGAATCTTAGGAA
CTCTTCGATCTTTTGAAACAAATAAAGCATGAGCGACACCCCCACTACCAGCAGGCATGGGCAT
CGGCTGCAAGGATCCACAGTACCTGCAGAACACCAGAACCTTATCATATAATGACAAGATCAGG
ATAGTACACATAAGAAATCTAACTCATAACACATAGAAACTCACGAATTCCAATTTCGCTTGAT
TATACCCATAACACGCCCAACTGGACGACTAGAAATGGAAGGAGCTGATGATCCAACTGTTGAT
TGTGTGGAATTAGTGTTCCGAGGAGCATCATCAGCACTATTAGGGACTAAATGAACATCTTCTT
CTTCTTCTTCTGAAAAAGAGCAACATTCACAAAATAAGGAAATAAAATGAGATGCCTTCATCTT
GTTATTTCAGCGTGAGAAAATACCATCATCATCTGCTATAAAAGACTTTGACTCGTGCCATTGA
TCTTGTGGCAAGAGCTCAACAGCAACTATATCACCATCAAAGGCCCTGTTCATATTTGAGCGGC
CACGGATAACAATCTCATCACCAATGCTCTCGCTTCCAACATAAGCTTCAAACGGATTGTAACG
ATTAACTCGAAGCTTCCCTTGATGGTAGATTCCACACCGCAAACCAGATGTAATTTCTGACATA
GGTTTGTGCTGTAATAATACCAAACAAACAGATGAGTACATTTCACGCAAGAGTGTATATGTCA
TCAAAAAAGCACTACTGTATAGTTAGCATACCTCATTGTAGATTACTTTCTTCTTTGATGGTCT
ATGATCGTCTACATCTTCCATAGAAACATCTCCGCTAGTTGGAACAACAACCAAATCAAGCAAA
CCAGGCTGTGCAAGCGATCTTACATATGACTCAACTGGAAGAAGAAATGTTTCATTGAGATTGT
GGCTTCCATAAAATTATTTCACTGTATTAAAAAAATTGAGCTATAAATCAGTGCTATCCACCTG
TCTCAGCGTTAAGGCCTTCTTCAATCGCTTTCCTTTTGTTATCTCTGTCATTTGTGATCAGTAG
AACCTTCACGCTCTCACCAAGATGACTTTGGTACCAACGTGCAGCAACACGAATTGCTGAATAA
GAAAACAATCAGTGGCACAACTGTTCTATATATGATAGAAAATGAAATGTGTGTGGAACCACAT
AACCAGGTTAACAAAATCATTCCATACCTCTGTCATTACGATCATTAGAGCTCTCCCCAACCAT
GTCTTTGACGTAAGTATCC
						
					

			
		

Sequences
Splice junction sequence	TGTGTGTGGAACCACATAACCAGGTTAACAAAATCATTCCATACCTCTGTCATTACGATCATTA GAGCTCTCCCCAACCATGTCTTTGACGTAAGTATCCgaactccaacttcaaagttcccatttgg aagtagtgtgcaatgtagtgcatcatcaatgtctcgacaacctataaagcagttgaagtataac tgtctaag
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	GAACTCCAACTTCAAAGTTCCCATTTGGAAGTAGTGTGCAATGTAGTGCATCATCAATGTCTCG ACAACCTATAAAGCAGTTGAAGTATAACTGTCTAAGGGTTTGACCCAGGTACATAAAATACCAA AAGATTGCAGGTATCCTGATTAAATTACCTGGTGGATCCACACTAAAGACTCTCACTTGGCGTA AGTCTTGTCTATTAGGATTAGCCAGATCTTCTGGTGATAATGTCCAAGGTAAAGGTGGCAAACA AGCAAGGACTTGTGTAGAGAAAGGCCTGGTGTTGATATCATTCTCTATTAAGACAACCTGCTTC ATGCATAAACACCATTAACATATTACAATCAAAAGTATGCCCTTTAGATGCAAGTATTTCTAAG ATACGGTTTATGCAACTCTAAATTTTAGTACACTTGCCTCTGTTTCAGTTTCTTTGTCACCAAT ATCTCCAATGGTTCGTACATAGTGTCCTGATGGATATCGAGACAAAACATCCCATGAATCAACC GCGACAACAATTCTTTTGTTCACAAGATTCTCAAGCTGCCTGGTTTGAATTCGAATCTTAGGAA CTCTTCGATCTTTTGAAACAAATAAAGCATGAGCGACACCCCCACTACCAGCAGGCATGGGCAT CGGCTGCAAGGATCCACAGTACCTGCAGAACACCAGAACCTTATCATATAATGACAAGATCAGG ATAGTACACATAAGAAATCTAACTCATAACACATAGAAACTCACGAATTCCAATTTCGCTTGAT TATACCCATAACACGCCCAACTGGACGACTAGAAATGGAAGGAGCTGATGATCCAACTGTTGAT TGTGTGGAATTAGTGTTCCGAGGAGCATCATCAGCACTATTAGGGACTAAATGAACATCTTCTT CTTCTTCTTCTGAAAAAGAGCAACATTCACAAAATAAGGAAATAAAATGAGATGCCTTCATCTT GTTATTTCAGCGTGAGAAAATACCATCATCATCTGCTATAAAAGACTTTGACTCGTGCCATTGA TCTTGTGGCAAGAGCTCAACAGCAACTATATCACCATCAAAGGCCCTGTTCATATTTGAGCGGC CACGGATAACAATCTCATCACCAATGCTCTCGCTTCCAACATAAGCTTCAAACGGATTGTAACG ATTAACTCGAAGCTTCCCTTGATGGTAGATTCCACACCGCAAACCAGATGTAATTTCTGACATA GGTTTGTGCTGTAATAATACCAAACAAACAGATGAGTACATTTCACGCAAGAGTGTATATGTCA TCAAAAAAGCACTACTGTATAGTTAGCATACCTCATTGTAGATTACTTTCTTCTTTGATGGTCT ATGATCGTCTACATCTTCCATAGAAACATCTCCGCTAGTTGGAACAACAACCAAATCAAGCAAA CCAGGCTGTGCAAGCGATCTTACATATGACTCAACTGGAAGAAGAAATGTTTCATTGAGATTGT GGCTTCCATAAAATTATTTCACTGTATTAAAAAAATTGAGCTATAAATCAGTGCTATCCACCTG TCTCAGCGTTAAGGCCTTCTTCAATCGCTTTCCTTTTGTTATCTCTGTCATTTGTGATCAGTAG AACCTTCACGCTCTCACCAAGATGACTTTGGTACCAACGTGCAGCAACACGAATTGCTGAATAA GAAAACAATCAGTGGCACAACTGTTCTATATATGATAGAAAATGAAATGTGTGTGGAACCACAT AACCAGGTTAACAAAATCATTCCATACCTCTGTCATTACGATCATTAGAGCTCTCCCCAACCAT GTCTTTGACGTAAGTATCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.12298274

Conservation Information
Conserved circRNAs	NA
PMCS	0.12298274

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6326891-6325735(+)
6327062-6326876(-)
6325324-6327043(-)
						
						Potential amino acid sequence
						
							MTLVPTCSNTNCSVITIIRALPNHVFDVSIRTPTSKFPFGSSVQCSASSMSRQPGGSTLKTLTW
RKSCLLGLARSSGDNVQGKGGKQARTCVEKGLVLISFSIKTTLASVSVSLSPISPMVRT*(+)
MVGESSNDRNDRAIRVAARWYQSHLGESVKVLLITNDRDNKRKAIEEGLNAETVESYVRSLAQP
GLLDLVVVPTSGDVSMEDVDDHRPSKKKVIYNEHKPMSEITSGLRCGIYHQGKLRVNRYNPFEA
YVGSESIGDEIVIRGRSNMNRAFDGDIVAVELLPQDQWHESKSFIADDDEEEEEDVHLVPNSAD
DAPRNTNSTQSTVGSSAPSISSRPVGRVMGIIKRNWNSYCGSLQPMPMPAGSGGVAHALFVSKD
RRVPKIRIQTRQLENLVNKRIVVAVDSWDVLSRYPSGHYVRTIGDIGDKETETEASVVLIENDI
NTRPFSTQVLACLPPLPWTLSPEDLANPNRQDLRQVRVFSVDPPGCRDIDDALHCTLLPNGNFE
VGVRILTSKTWLGRALMIVMTEQFVLLHVGTKVILVRA*(-)
MMHYIAHYFQMGTLKLEFGYLRQRHGWGEL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6326891-6325735(+) 6327062-6326876(-) 6325324-6327043(-)
Potential amino acid sequence	MTLVPTCSNTNCSVITIIRALPNHVFDVSIRTPTSKFPFGSSVQCSASSMSRQPGGSTLKTLTW RKSCLLGLARSSGDNVQGKGGKQARTCVEKGLVLISFSIKTTLASVSVSLSPISPMVRT(+) MVGESSNDRNDRAIRVAARWYQSHLGESVKVLLITNDRDNKRKAIEEGLNAETVESYVRSLAQP GLLDLVVVPTSGDVSMEDVDDHRPSKKKVIYNEHKPMSEITSGLRCGIYHQGKLRVNRYNPFEA YVGSESIGDEIVIRGRSNMNRAFDGDIVAVELLPQDQWHESKSFIADDDEEEEEDVHLVPNSAD DAPRNTNSTQSTVGSSAPSISSRPVGRVMGIIKRNWNSYCGSLQPMPMPAGSGGVAHALFVSKD RRVPKIRIQTRQLENLVNKRIVVAVDSWDVLSRYPSGHYVRTIGDIGDKETETEASVVLIENDI NTRPFSTQVLACLPPLPWTLSPEDLANPNRQDLRQVRVFSVDPPGCRDIDDALHCTLLPNGNFE VGVRILTSKTWLGRALMIVMTEQFVLLHVGTKVILVRA(-) MMHYIAHYFQMGTLKLEFGYLRQRHGWGEL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d027487_circ_g.2

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