Plant Circular RNA Database

Detail information of Zm00001d037982_circ_g.4

			
						 General Information
					
						CircRNA Name
						Zm00001d037982_circ_g.4
					
						ID in PlantcircBase
						zma_circ_009091
					
						Alias
						Zm06circ00078
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 144225224-144239048  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d037982						
					
						Parent gene annotation
						
							AMP deaminase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d037982_circ_g.1 Zm00001d037982_circ_g.2 Zm00001d037982_circ_g.3 Zm00001d037982_circ_g.5 						
					
						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
						Zm00001d037982_T007:11
Zm00001d037982_T002:10
Zm00001d037982_T003:10
Zm00001d037982_T005:11
Zm00001d037982_T008:11
Zm00001d037982_T004:10
Zm00001d037982_T001:11
Zm00001d037982_T006:10

General Information
CircRNA Name	Zm00001d037982_circ_g.4
ID in PlantcircBase	zma_circ_009091
Alias	Zm06circ00078
Organism	Zea mays
Position	chr6: 144225224-144239048 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d037982
Parent gene annotation	AMP deaminase
Parent gene strand	-
Alternative splicing	Zm00001d037982_circ_g.1 Zm00001d037982_circ_g.2 Zm00001d037982_circ_g.3 Zm00001d037982_circ_g.5
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	Zm00001d037982_T007:11 Zm00001d037982_T002:10 Zm00001d037982_T003:10 Zm00001d037982_T005:11 Zm00001d037982_T008:11 Zm00001d037982_T004:10 Zm00001d037982_T001:11 Zm00001d037982_T006:10

			
						 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  
						
							ACTTTGGCCACATGGATTGTATTTTAGATTGAATTTGTCAAAACGATGAAATGTGCTTTTGTCT
GCATGGACATCTAGCAAATCAACATTCAGATCATACcaaaacatgaagtataattcccatagca
gctacaacgcaactcgtctggtatacacgaggctggacatcttacaggtccagctcgtctggta
ttaagatc

									
								

					

						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: 1273
Transcript exons: 144225224-144225364,144225448-144225546,144225866-144225
946,144226118-144226291,144226681-144226791,144226862-14
4226915,144226991-144227143,144227435-144227575,14423076
5-144230878,144230972-144231033,144238906-144239048
CAAAACATGAAGTATAATTCCCATAGCAGCTACAACGCAACTCGTCTGGTATACACGAGGCTGG
ACATCTTACAGGTCCAGCTCGTCTGGTATTAAGATCTCATTGTCAGAGTACACTAGTTTCATTT
CATTTCTCCAGATCATCTCTCTAAATTGAACCCTGATGTGCGGTACATTGGTTCTGTGAATATC
ATTTCCAGCAGGTCCTCTTTTGAAGTAGTTCTTACCAATCCAGTGCGCCTTGAGAGCATGTGAA
AACCCAGATTGGTAAACAGAGTTCCTCGCAATTTCGCATAAATCACAAGAACTGAGCTTCCACA
GCGAAGCAGCAATGCTGTATTCTTCCACCAATGGTTCTTTTGTCAGGTGAATTTGCAAAGGGTC
ATCCGTAGATAATGAGACATTCAGACCTCGTTGGAAGAACGTTGGAAAAGGGTTGCGATGATAG
TCAAGAAATAAGGAGTTGTTGCTCAATGGGGACATCGCCAGACCAATCTGACCAAGATAGTACA
AGTACTGAAGCACAGGAGACTTCCTTAGATTAATTCCATGTGATATGTTGTGACAGAGAAGAAA
TGTCGCTGCCAAGTGATCAACATCTCCAGCCTCTCCAGCATGTGGACGGAATTTGATAGTGGTC
ATTCCCTTTGACTCACGCAGCTTGTTTAGGGTGAATAAGTTAGCATAGCAGTAGTACGCATAAT
ATGAAAATGCAGGGTTGAACACATTGGTCCACTGTTCAGGTGTGGGCATGTGCTTTGTTGGACG
CCTTTCTGGTTTACTTTCATCATCAACCAGGTCCAACCCTACAACCTGCTTCAGGAAGACATGG
AGCTGTGGGTGTGAAGCTGGATCAATAGTAACCTCAAAAAGAGGAACGAAAATGTTGTCAAGAA
GATTTTGGAATGATGTAACGATACCCATTTCCTTGTACACATTATATAAGCGTGGAATCTGAAC
CAGCCAGACAACATTTCCACTGTGCAATTCATTGTTCACTATCCAACTTGCAAGTTGGTCCCAT
TCACTCTGTTTCCTTCCGTAGATTGAAATCCTATATTCTGCCATCTGATATTTGCTAGCAGAAA
GGTCAGAGAAAACTTGCTTTGTCAACTCAGCAAGAAAACGGCCTTGAATAAGATTATCTTGTTT
GAGGAAAATTTCTCTGAGCCTACTTTGGCCACATGGATTGTATTTTAGATTGAATTTGTCAAAA
CGATGAAATGTGCTTTTGTCTGCATGGACATCTAGCAAATCAACATTCAGATCATAC
						
					

						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	ACTTTGGCCACATGGATTGTATTTTAGATTGAATTTGTCAAAACGATGAAATGTGCTTTTGTCT GCATGGACATCTAGCAAATCAACATTCAGATCATACcaaaacatgaagtataattcccatagca gctacaacgcaactcgtctggtatacacgaggctggacatcttacaggtccagctcgtctggta ttaagatc
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: 1273 Transcript exons: 144225224-144225364,144225448-144225546,144225866-144225 946,144226118-144226291,144226681-144226791,144226862-14 4226915,144226991-144227143,144227435-144227575,14423076 5-144230878,144230972-144231033,144238906-144239048 CAAAACATGAAGTATAATTCCCATAGCAGCTACAACGCAACTCGTCTGGTATACACGAGGCTGG ACATCTTACAGGTCCAGCTCGTCTGGTATTAAGATCTCATTGTCAGAGTACACTAGTTTCATTT CATTTCTCCAGATCATCTCTCTAAATTGAACCCTGATGTGCGGTACATTGGTTCTGTGAATATC ATTTCCAGCAGGTCCTCTTTTGAAGTAGTTCTTACCAATCCAGTGCGCCTTGAGAGCATGTGAA AACCCAGATTGGTAAACAGAGTTCCTCGCAATTTCGCATAAATCACAAGAACTGAGCTTCCACA GCGAAGCAGCAATGCTGTATTCTTCCACCAATGGTTCTTTTGTCAGGTGAATTTGCAAAGGGTC ATCCGTAGATAATGAGACATTCAGACCTCGTTGGAAGAACGTTGGAAAAGGGTTGCGATGATAG TCAAGAAATAAGGAGTTGTTGCTCAATGGGGACATCGCCAGACCAATCTGACCAAGATAGTACA AGTACTGAAGCACAGGAGACTTCCTTAGATTAATTCCATGTGATATGTTGTGACAGAGAAGAAA TGTCGCTGCCAAGTGATCAACATCTCCAGCCTCTCCAGCATGTGGACGGAATTTGATAGTGGTC ATTCCCTTTGACTCACGCAGCTTGTTTAGGGTGAATAAGTTAGCATAGCAGTAGTACGCATAAT ATGAAAATGCAGGGTTGAACACATTGGTCCACTGTTCAGGTGTGGGCATGTGCTTTGTTGGACG CCTTTCTGGTTTACTTTCATCATCAACCAGGTCCAACCCTACAACCTGCTTCAGGAAGACATGG AGCTGTGGGTGTGAAGCTGGATCAATAGTAACCTCAAAAAGAGGAACGAAAATGTTGTCAAGAA GATTTTGGAATGATGTAACGATACCCATTTCCTTGTACACATTATATAAGCGTGGAATCTGAAC CAGCCAGACAACATTTCCACTGTGCAATTCATTGTTCACTATCCAACTTGCAAGTTGGTCCCAT TCACTCTGTTTCCTTCCGTAGATTGAAATCCTATATTCTGCCATCTGATATTTGCTAGCAGAAA GGTCAGAGAAAACTTGCTTTGTCAACTCAGCAAGAAAACGGCCTTGAATAAGATTATCTTGTTT GAGGAAAATTTCTCTGAGCCTACTTTGGCCACATGGATTGTATTTTAGATTGAATTTGTCAAAA CGATGAAATGTGCTTTTGTCTGCATGGACATCTAGCAAATCAACATTCAGATCATAC
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
						0.131299307

Conservation Information
Conserved circRNAs	NA
PMCS	0.131299307

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							144225233-144225295(-)
						
						Potential amino acid sequence
						
							MFWYDLNVDLLDVHADKSTFHRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLAELTKQVFSD
LSASKYQMAEYRISIYGRKQSEWDQLASWIVNNELHSGNVVWLVQIPRLYNVYKEMGIVTSFQN
LLDNIFVPLFEVTIDPASHPQLHVFLKQVVGLDLVDDESKPERRPTKHMPTPEQWTNVFNPAFS
YYAYYCYANLFTLNKLRESKGMTTIKFRPHAGEAGDVDHLAATFLLCHNISHGINLRKSPVLQY
LYYLGQIGLAMSPLSNNSLFLDYHRNPFPTFFQRGLNVSLSTDDPLQIHLTKEPLVEEYSIAAS
AHWIGKNYFKRGPAGNDIHRTNVPHIRVQFREMIWRNEMKLVYSDNEILIPDELDL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	144225233-144225295(-)
Potential amino acid sequence	MFWYDLNVDLLDVHADKSTFHRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLAELTKQVFSD LSASKYQMAEYRISIYGRKQSEWDQLASWIVNNELHSGNVVWLVQIPRLYNVYKEMGIVTSFQN LLDNIFVPLFEVTIDPASHPQLHVFLKQVVGLDLVDDESKPERRPTKHMPTPEQWTNVFNPAFS YYAYYCYANLFTLNKLRESKGMTTIKFRPHAGEAGDVDHLAATFLLCHNISHGINLRKSPVLQY LYYLGQIGLAMSPLSNNSLFLDYHRNPFPTFFQRGLNVSLSTDDPLQIHLTKEPLVEEYSIAAS AHWIGKNYFKRGPAGNDIHRTNVPHIRVQFREMIWRNEMKLVYSDNEILIPDELDL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d037982_circ_g.4

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