Plant Circular RNA Database

Detail information of Zm00001d010974_circ_g.4

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d010974_circ_g.4
					

						ID in PlantcircBase
						zma_circ_002798
					

						Alias
						circ2765
					

						Organism
						
							Zea mays						
					

						Position
						
							chr8: 135538756-135540305  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRCexplor2
					

						Parent gene
						
							Zm00001d010974						
					

						Parent gene annotation
						
							E3 SUMO-protein ligase SIZ1
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d010974_circ_g.1 Zm00001d010974_circ_g.2 Zm00001d010974_circ_g.3 						
					

						Support reads
						9
					

						Tissues
						seedling leaves
					

						Exon boundary  
						
							No-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-CA							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
						Zm00001d010974_T055:4
Zm00001d010974_T012:4
Zm00001d010974_T003:4
Zm00001d010974_T033:4
Zm00001d010974_T054:4
Zm00001d010974_T059:4
Zm00001d010974_T039:4
Zm00001d010974_T021:4
Zm00001d010974_T027:4
Zm00001d010974_T043:4
Zm00001d010974_T018:4
Zm00001d010974_T005:4
Zm00001d010974_T031:4
Zm00001d010974_T046:4
Zm00001d010974_T009:4
Zm00001d010974_T016:4
Zm00001d010974_T011:4
Zm00001d010974_T062:4
Zm00001d010974_T038:4
Zm00001d010974_T072:4
Zm00001d010974_T025:4
Zm00001d010974_T028:4
Zm00001d010974_T007:4
Zm00001d010974_T036:4
Zm00001d010974_T051:4
Zm00001d010974_T013:4
Zm00001d010974_T049:4
Zm00001d010974_T019:4
Zm00001d010974_T020:4
Zm00001d010974_T002:4
Zm00001d010974_T045:3
Zm00001d010974_T030:4
Zm00001d010974_T056:4
Zm00001d010974_T008:4
Zm00001d010974_T034:4
Zm00001d010974_T053:4
Zm00001d010974_T042:4
Zm00001d010974_T037:4
Zm00001d010974_T044:4
Zm00001d010974_T001:4
Zm00001d010974_T015:4
Zm00001d010974_T064:4
Zm00001d010974_T047:4
Zm00001d010974_T058:4
Zm00001d010974_T060:4
Zm00001d010974_T022:4
Zm00001d010974_T048:4
Zm00001d010974_T014:4
Zm00001d010974_T050:4
Zm00001d010974_T075:4
Zm00001d010974_T023:4
Zm00001d010974_T017:4
Zm00001d010974_T057:4
Zm00001d010974_T024:4
Zm00001d010974_T040:4
Zm00001d010974_T010:4
Zm00001d010974_T006:4
Zm00001d010974_T041:4
Zm00001d010974_T029:4
Zm00001d010974_T052:4
Zm00001d010974_T065:4
Zm00001d010974_T004:4
Zm00001d010974_T063:4
Zm00001d010974_T026:4
Zm00001d010974_T032:4
Zm00001d010974_T035:4

					

			
		

General Information
CircRNA Name	Zm00001d010974_circ_g.4
ID in PlantcircBase	zma_circ_002798
Alias	circ2765
Organism	Zea mays
Position	chr8: 135538756-135540305 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d010974
Parent gene annotation	E3 SUMO-protein ligase SIZ1
Parent gene strand	-
Alternative splicing	Zm00001d010974_circ_g.1 Zm00001d010974_circ_g.2 Zm00001d010974_circ_g.3
Support reads	9
Tissues	seedling leaves
Exon boundary	No-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-CA 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	Zm00001d010974_T055:4 Zm00001d010974_T012:4 Zm00001d010974_T003:4 Zm00001d010974_T033:4 Zm00001d010974_T054:4 Zm00001d010974_T059:4 Zm00001d010974_T039:4 Zm00001d010974_T021:4 Zm00001d010974_T027:4 Zm00001d010974_T043:4 Zm00001d010974_T018:4 Zm00001d010974_T005:4 Zm00001d010974_T031:4 Zm00001d010974_T046:4 Zm00001d010974_T009:4 Zm00001d010974_T016:4 Zm00001d010974_T011:4 Zm00001d010974_T062:4 Zm00001d010974_T038:4 Zm00001d010974_T072:4 Zm00001d010974_T025:4 Zm00001d010974_T028:4 Zm00001d010974_T007:4 Zm00001d010974_T036:4 Zm00001d010974_T051:4 Zm00001d010974_T013:4 Zm00001d010974_T049:4 Zm00001d010974_T019:4 Zm00001d010974_T020:4 Zm00001d010974_T002:4 Zm00001d010974_T045:3 Zm00001d010974_T030:4 Zm00001d010974_T056:4 Zm00001d010974_T008:4 Zm00001d010974_T034:4 Zm00001d010974_T053:4 Zm00001d010974_T042:4 Zm00001d010974_T037:4 Zm00001d010974_T044:4 Zm00001d010974_T001:4 Zm00001d010974_T015:4 Zm00001d010974_T064:4 Zm00001d010974_T047:4 Zm00001d010974_T058:4 Zm00001d010974_T060:4 Zm00001d010974_T022:4 Zm00001d010974_T048:4 Zm00001d010974_T014:4 Zm00001d010974_T050:4 Zm00001d010974_T075:4 Zm00001d010974_T023:4 Zm00001d010974_T017:4 Zm00001d010974_T057:4 Zm00001d010974_T024:4 Zm00001d010974_T040:4 Zm00001d010974_T010:4 Zm00001d010974_T006:4 Zm00001d010974_T041:4 Zm00001d010974_T029:4 Zm00001d010974_T052:4 Zm00001d010974_T065:4 Zm00001d010974_T004:4 Zm00001d010974_T063:4 Zm00001d010974_T026:4 Zm00001d010974_T032:4 Zm00001d010974_T035:4

			
						 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  
						
							GAGAAACAGATGGAATGGAACCTGTATGTGTCATCAACAACTTTTGCCACCGCCTCCCTTGTAA
GAGCATTTTTCCTTCCCCATCCATGATGATGTTGACcccatcatttccaacaccagatgacata
aatttcacaggtagtaatggatttccggtagtcacccaaaacctgcaaatacgaagggtggaat
taaacaat

									
								

					

						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
						
							CCCATCATTTCCAACACCAGATGACATAAATTTCACAGGTAGTAATGGATTTCCGGTAGTCACC
CAAAACCTGCAAATACGAAGGGTGGAATTAAACAATGAGAACAGAATTGCAGACGATAAGAAAT
TCTAAGTAAAGTTGTTCAAGTGCAATGCCAACTTCAGAGTGCCAACACAGATTTACATGTATCA
TCAGCAGGTTTTGTTCATAAAAAACAAAAAAATACATTCGAGGATCTAACCAAAAGGCATAGTA
ACTTCAATTGCATAGAAAACTAGAAACATCAAGCATTTTAGTCTTCAATAATTAGGCTACTTTT
ACATGTTACATTTGTTCCAAAAGGAAATAAACAATCAGCATGTTCTACCCAAGCAAATAGAAGA
AAAAGCTTAGGTCTTAAGGCGCACTATCACCTCAGGCAAAGACAACAAAGAGTGCCGCTTAACC
TACGGGGTGATCATACAAGTATCCAGCTTGAAAAATCACAGAATGGGTGTAACAGTTCACATAA
ATACATTCAAAAGGTTCAGCGCATAACCCAGTTAAAAATGGATAGCTCAATAGCATCCATATGT
GTACCAAGTACGGACACAAAAACATATCAAAATAACAGCTTACAGCATTCCATCAGACAACCAA
GCAACCAGTAGCACGGGCTGTTAAACAAGAGGTCATGGGATCAATTACCAGTTTACCAAAACAA
TCAATTGTAGGAATAGGTAGAACAAAAGAGGGTTCTAACAAACCCTGTGTGAGTGAAAAAAAGG
CACCCTAAAAAAGGTAAACCATACAGGAAAGGGAAACCATATCACAGTTCATTCGCAACATCTT
AGCTATAGCAGGACATTCCAAGGGCCACTCATGAAAAAAAACATAGTGAAACAAAGAAAGCCAA
ACAGACTAGAGCAGAACATACGGGTCTGCCCGTTTCAGTCGGCACAGTTCACAATAAAAATGAG
GTGGAATATCAGGGCCAGCACCCTCCGTGGGCTTATCTGGAATGAGTACGCAGGTAATATGCTG
CCACACCTGGCATTTGCCATCTTCGCACTGCAGGAAACAAGACAGCAAGATAAAAGATTAACAA
GGCGCATGAAACCAAAAGAAACTGGTTGCGGTTAAGAGAAACTGTGTTCACGTCATATGTGCCT
TTCAAATGAAAACAAAATACATGCACATATATAAAAGGGTTACCTTAATCATATTGTCATTTAG
CAATGTGCTATTGCAAAGGCAGCGGACCTTAGTATCCACATGGTAGAAGTCAGGCGCTTCCTCT
TTGGGCCTGAAATGACTGAAATCTGATCCACTGTGGCTTCTAGAGGGAAGGTCAGGAGCACATA
CTTGCATTTTCCTGCTAATAAAAGCACCGAGGCACAAGAAGGAAATAAGTCAACAACTTCATGT
GACGTAGTCAACTCTCTGGTATGTATTCTTGTACTGAACATTGAGAAACAGATGGAATGGAACC
TGTATGTGTCATCAACAACTTTTGCCACCGCCTCCCTTGTAAGAGCATTTTTCCTTCCCCATCC
ATGATGATGTTGAC
						
					

			
		

Sequences
Splice junction sequence	GAGAAACAGATGGAATGGAACCTGTATGTGTCATCAACAACTTTTGCCACCGCCTCCCTTGTAA GAGCATTTTTCCTTCCCCATCCATGATGATGTTGACcccatcatttccaacaccagatgacata aatttcacaggtagtaatggatttccggtagtcacccaaaacctgcaaatacgaagggtggaat taaacaat
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	CCCATCATTTCCAACACCAGATGACATAAATTTCACAGGTAGTAATGGATTTCCGGTAGTCACC CAAAACCTGCAAATACGAAGGGTGGAATTAAACAATGAGAACAGAATTGCAGACGATAAGAAAT TCTAAGTAAAGTTGTTCAAGTGCAATGCCAACTTCAGAGTGCCAACACAGATTTACATGTATCA TCAGCAGGTTTTGTTCATAAAAAACAAAAAAATACATTCGAGGATCTAACCAAAAGGCATAGTA ACTTCAATTGCATAGAAAACTAGAAACATCAAGCATTTTAGTCTTCAATAATTAGGCTACTTTT ACATGTTACATTTGTTCCAAAAGGAAATAAACAATCAGCATGTTCTACCCAAGCAAATAGAAGA AAAAGCTTAGGTCTTAAGGCGCACTATCACCTCAGGCAAAGACAACAAAGAGTGCCGCTTAACC TACGGGGTGATCATACAAGTATCCAGCTTGAAAAATCACAGAATGGGTGTAACAGTTCACATAA ATACATTCAAAAGGTTCAGCGCATAACCCAGTTAAAAATGGATAGCTCAATAGCATCCATATGT GTACCAAGTACGGACACAAAAACATATCAAAATAACAGCTTACAGCATTCCATCAGACAACCAA GCAACCAGTAGCACGGGCTGTTAAACAAGAGGTCATGGGATCAATTACCAGTTTACCAAAACAA TCAATTGTAGGAATAGGTAGAACAAAAGAGGGTTCTAACAAACCCTGTGTGAGTGAAAAAAAGG CACCCTAAAAAAGGTAAACCATACAGGAAAGGGAAACCATATCACAGTTCATTCGCAACATCTT AGCTATAGCAGGACATTCCAAGGGCCACTCATGAAAAAAAACATAGTGAAACAAAGAAAGCCAA ACAGACTAGAGCAGAACATACGGGTCTGCCCGTTTCAGTCGGCACAGTTCACAATAAAAATGAG GTGGAATATCAGGGCCAGCACCCTCCGTGGGCTTATCTGGAATGAGTACGCAGGTAATATGCTG CCACACCTGGCATTTGCCATCTTCGCACTGCAGGAAACAAGACAGCAAGATAAAAGATTAACAA GGCGCATGAAACCAAAAGAAACTGGTTGCGGTTAAGAGAAACTGTGTTCACGTCATATGTGCCT TTCAAATGAAAACAAAATACATGCACATATATAAAAGGGTTACCTTAATCATATTGTCATTTAG CAATGTGCTATTGCAAAGGCAGCGGACCTTAGTATCCACATGGTAGAAGTCAGGCGCTTCCTCT TTGGGCCTGAAATGACTGAAATCTGATCCACTGTGGCTTCTAGAGGGAAGGTCAGGAGCACATA CTTGCATTTTCCTGCTAATAAAAGCACCGAGGCACAAGAAGGAAATAAGTCAACAACTTCATGT GACGTAGTCAACTCTCTGGTATGTATTCTTGTACTGAACATTGAGAAACAGATGGAATGGAACC TGTATGTGTCATCAACAACTTTTGCCACCGCCTCCCTTGTAAGAGCATTTTTCCTTCCCCATCC ATGATGATGTTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.149081989

Conservation Information
Conserved circRNAs	NA
PMCS	0.149081989

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2017b

circRNA

Detail information of Zm00001d010974_circ_g.4

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