Plant Circular RNA Database

Detail information of Zm00001d015754_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d015754_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002034
					
						Alias
						circ937
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 116616491-116619896  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d015754						
					
						Parent gene annotation
						
							Nuclear pore complex protein NUP205
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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  
						
							GT-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
						Zm00001d015754_T040:6
Zm00001d015754_T009:6
Zm00001d015754_T036:6
Zm00001d015754_T019:7
Zm00001d015754_T022:6
Zm00001d015754_T017:6
Zm00001d015754_T030:6
Zm00001d015754_T007:6
Zm00001d015754_T032:6
Zm00001d015754_T027:6
Zm00001d015754_T035:6
Zm00001d015754_T038:6
Zm00001d015754_T013:6
Zm00001d015754_T015:6
Zm00001d015754_T004:6
Zm00001d015754_T043:6
Zm00001d015754_T002:5
Zm00001d015754_T046:6
Zm00001d015754_T029:6
Zm00001d015754_T041:6
Zm00001d015754_T048:2
Zm00001d015754_T037:6
Zm00001d015754_T025:6
Zm00001d015754_T031:6
Zm00001d015754_T010:6
Zm00001d015754_T033:6
Zm00001d015754_T044:6
Zm00001d015754_T008:6
Zm00001d015754_T001:6
Zm00001d015754_T026:7
Zm00001d015754_T021:6
Zm00001d015754_T005:6
Zm00001d015754_T023:6
Zm00001d015754_T020:6
Zm00001d015754_T034:6
Zm00001d015754_T014:6
Zm00001d015754_T028:6
Zm00001d015754_T047:5
Zm00001d015754_T018:6
Zm00001d015754_T049:1
Zm00001d015754_T006:6
Zm00001d015754_T012:6
Zm00001d015754_T003:5
Zm00001d015754_T011:6
Zm00001d015754_T024:6
Zm00001d015754_T016:6

General Information
CircRNA Name	Zm00001d015754_circ_g.1
ID in PlantcircBase	zma_circ_002034
Alias	circ937
Organism	Zea mays
Position	chr5: 116616491-116619896 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d015754
Parent gene annotation	Nuclear pore complex protein NUP205
Parent gene strand	+
Alternative splicing	NA
Support reads	4
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	GT-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	Zm00001d015754_T040:6 Zm00001d015754_T009:6 Zm00001d015754_T036:6 Zm00001d015754_T019:7 Zm00001d015754_T022:6 Zm00001d015754_T017:6 Zm00001d015754_T030:6 Zm00001d015754_T007:6 Zm00001d015754_T032:6 Zm00001d015754_T027:6 Zm00001d015754_T035:6 Zm00001d015754_T038:6 Zm00001d015754_T013:6 Zm00001d015754_T015:6 Zm00001d015754_T004:6 Zm00001d015754_T043:6 Zm00001d015754_T002:5 Zm00001d015754_T046:6 Zm00001d015754_T029:6 Zm00001d015754_T041:6 Zm00001d015754_T048:2 Zm00001d015754_T037:6 Zm00001d015754_T025:6 Zm00001d015754_T031:6 Zm00001d015754_T010:6 Zm00001d015754_T033:6 Zm00001d015754_T044:6 Zm00001d015754_T008:6 Zm00001d015754_T001:6 Zm00001d015754_T026:7 Zm00001d015754_T021:6 Zm00001d015754_T005:6 Zm00001d015754_T023:6 Zm00001d015754_T020:6 Zm00001d015754_T034:6 Zm00001d015754_T014:6 Zm00001d015754_T028:6 Zm00001d015754_T047:5 Zm00001d015754_T018:6 Zm00001d015754_T049:1 Zm00001d015754_T006:6 Zm00001d015754_T012:6 Zm00001d015754_T003:5 Zm00001d015754_T011:6 Zm00001d015754_T024:6 Zm00001d015754_T016:6

			
						 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  
						
							AAAAGTGTCACCCATACTAAAGGATGCAATTTGGAATTATCTTGAGCAATATGATCTTCCGGTG
GTTACAGCTCCATTAGGTCACCATACAGCAACACAGgaatgatgatgaggacattgtctacatg
tacactggctacactcacaagctaatgatgtgctttatttcccacccaacttccagagataagg
ttagagga

									
								

					

						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
						
							GAATGATGATGAGGACATTGTCTACATGTACACTGGCTACACTCACAAGCTAATGATGTGCTTT
ATTTCCCACCCAACTTCCAGAGATAAGGTTAGAGGAATACTTCATTAAAACATATAATAACCTA
GTAGAATAGTCTTTCCCGAGAAAAAAGTAAAATACTCCCTCCGTACATGTATGACACTATTACT
TTTGCACACAAACTTTGTCCACTCGTCTTATTCAAATATTTAATGCAAATATGCAAGAATATAA
GTCATGCTGTCAGTATCTTTAATGATATAACAAGTCACAACAAAATAAATAATAGTTCCATTAT
GTGCAAAAGTTAGTGCTGTCATATATTTGAACAAGGAGGGATTATCCAGTTTTCCTGTCTTGCA
GCCTCTGATGGTCACTATATGATTAGTGTCCTACGATGAGGATAACATGCCAAGTAACTTCCTT
AATTCTGTGTAACAGATAAAGGAAATCAAGGAGAAAGCAATGACTGCCCTCAGTCCATATGAGC
CACCACGAGGTCAACGAGAAGATCTTGGTAGAAATGGGGAACAAGCTGATCAGCCTACTAAGGA
GCCTTTTGTATCCCTGCTGGAACTGGTTAGAGAAATCTATCAGGTAATGCTTCTGTCATTTATA
TAGTCAAATCAAATTTATGGACCTGAAAGCACCTATGATTTAGGTTGACATGAGTCTTGCGTCC
TCCCATGTTTTAGTCTTGTTTTGTTTTTATAACGATATTATCTATGCCATCTTCTGTGACCACT
TGGTAATGGCTACTACTTCCCAGACAATAGATGCAAATGCAGTGTTCCAAAGCAAAAAGTAAAA
CTTTCTTTTTGCTTCTCTGTCCTCGGTAAAATGGATTTTTTAAAAACTTTCTGCATGTGCACAC
AACATTCTGCACTCATACGAGTCATTTTGGGTATCAATGGCTAGATGGGTGTCTTTCATACACT
AGGTTGTGTGTTCAAACCCTCACAACTACATATTTTTGAAGGGCGGGCCTGGTGCAGCGGTAGA
GCCTACCGTCTGTAACCGGAAGGTCCCGGGTTCGAGCTCCAGCCTCTGCATATTATGCGGGTAA
GGCTTGGCGTTTAAAGATACCCTTCCCTAGACCCCGCACAGTGCGGGAAGCCTACGGCACTGGG
TACGCCCTTTATCAAATGCTTACTAGGACACACTGTTCATTTTTTTGCTGCTTTGTGAACTTGA
GCCCCAGTCAGATTCTGGCAACATGTGTCCCAAGCTTGACTGTTGTTTTTTTCTTATGATCGAT
ATTTCTTTTATTTAGTTCGATACCCCCGTTAGAATACAGAAGGATTAATTATTCAGGCCTGCAT
GCCTTGTTCTGTATAGATGGAGATGTATTTTAATTATAGATAGAGTTGTAACCGAACAGGACTA
GATATAGAATCTTGATGGGTTACCACTATTGTAACTGAGTTGGACTTCAACTTATTGGCAGTTT
CTGCTCATATAAATATACATCATACGGCCTCCTCTGGAGGATATACACTTAACTAATATGGTGG
TTTTCTCTCAACTCCTGAGGCAACCAGACAACTGTGTTCATGTTGAAGGTTCTATGCAATCATG
ATACATTATGAAATGTAATTGATGCATCCATTTCAACCACTGTTGGTCCTTGTAGTGTAATGCA
CCTTTTAGTTTGACTGTTTTGTAGATTCTTGGCTCGTTTCCAATTCAAGGTTAAGATTTTCTTC
CTCTAGTCTAGTAACTGCTTCCATCTGTCGTGATTGTGACCATCAGAAGTACGATCATGGATTT
TCATTAGTGGAATTTAAGTATTGTTTCATCATCACTTTGAAGCCCGTGATTTGATCTTATAAAT
GTTCATGAAGCAGTAATGATATTATGAAAGCGCATTTGATGTCCGTATGGTTACTACATTTGTT
TTGAACACATACTATTTGATTAGCCTTTTTCAGTCTACTATTTTGTATGATCTCTCAAATGTTC
TTTACTGTGTTTTTTGTTTGTTTGAGAAGTTTACATGGCAATAACATTTTTTTTGTTTGCATGT
GTCTCTTCTATTCAGAAAGTGCCTGAGCTAGGGAATGGAAATGAGGAATTGTGGACTTTTGTTA
TATATGCAGGAGAAGACCACACAAACACACAAACTCTTGTGGCCTTTCTTGGACTTCTTAGTAC
TTTGGTATGCATTATTGTTACTGCTCTTTTCAGTTTTTCATTGTTTGCTTTTGCGCCGACTGAA
CAACTGGACTTGTCAGGCTTCCACTGAAGTTGGTGCTGCCAAAGTCTATGAGCTGCTCCAGGGA
AAAACTTACCGTTCAGTTGGTTGGAGCACTTTGTTTGATTGCTTATCTATCTATGAGGAGAAGT
TCAAAAAATCAATTCAATCTTCTGCAAACATACTGCCTGATTTTCCTGAGGGGGATGCACAAGC
GCTTGTTGCATATTTAGCTGTTCTTCAGAAGGTGTGAGATTTCTTGTACTTATTCATTTGTTTT
GCTTGTCTTGGTCAGCTTTGTTCACAGTAAACTGGATTTCCATCTCTGACGATGATGGTTTTGG
AATCACTATATTTTACCTTTAGCATTACCCTCCACTTTCCATGACTATCTCATCATTCTGAAGG
TGTGGCACCTATCCTACGTTGTCGATTTCATGATTTTGTTCCTCCATCCCTTTTACACTTCAAT
TCTGTAGTTGTGACTGCACATCATCAGCTATGCAAGTTTCTTTGAAAAATCAGAAAATTTAATC
AGCCTTTGTCTCACCATATCACTCTTGCTTATTTTATACCCATTGAGAGGTTCGTTACTGGCTT
ACAGCTGCATCTAGATTTTGGAGGCTTAGTAGAATTTTTAATGAATCAATACACTTCTGATCTC
TCATCTGTACGCCTGTACTGGCCATAAATGAGTACCACAGCCACCACTACTACTAAGTTGCTTG
TTGTGCCAGATACACTGTGTCTAATAAAGTGTTCTCTCCATCATGCATAATGATTCTGTTGCTA
CTGTGTTTTCTCAAAGGAAGCTGCTTTGAGTTGTCTACATGATTAGATAAATCATTAAATTCGT
GTACATGCTGTAGGTGGTGGAAAATGGGAATCTTACGGAACGCAGGAAGTGGTTCCCTGACATT
GAACCTTTATTCAAGCTTCTCAGCTATGAAAATGTGCCTCCATACTTGAAGGTATAAGTTTTGA
GTGCATCTGTACATCAGGCATCTTTTTCTTTTTTTTGGTTGGGTGGCAGTTATGTTTTATCATA
ATATGTGCAGGGGGCTTTGCGAAATTCAATAACTGCATTTATAAAAGTGTCACCCATACTAAAG
GATGCAATTTGGAATTATCTTGAGCAATATGATCTTCCGGTGGTTACAGCTCCATTAGGTCACC
ATACAGCAACACAG
						
					

			
		

Sequences
Splice junction sequence	AAAAGTGTCACCCATACTAAAGGATGCAATTTGGAATTATCTTGAGCAATATGATCTTCCGGTG GTTACAGCTCCATTAGGTCACCATACAGCAACACAGgaatgatgatgaggacattgtctacatg tacactggctacactcacaagctaatgatgtgctttatttcccacccaacttccagagataagg ttagagga
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	GAATGATGATGAGGACATTGTCTACATGTACACTGGCTACACTCACAAGCTAATGATGTGCTTT ATTTCCCACCCAACTTCCAGAGATAAGGTTAGAGGAATACTTCATTAAAACATATAATAACCTA GTAGAATAGTCTTTCCCGAGAAAAAAGTAAAATACTCCCTCCGTACATGTATGACACTATTACT TTTGCACACAAACTTTGTCCACTCGTCTTATTCAAATATTTAATGCAAATATGCAAGAATATAA GTCATGCTGTCAGTATCTTTAATGATATAACAAGTCACAACAAAATAAATAATAGTTCCATTAT GTGCAAAAGTTAGTGCTGTCATATATTTGAACAAGGAGGGATTATCCAGTTTTCCTGTCTTGCA GCCTCTGATGGTCACTATATGATTAGTGTCCTACGATGAGGATAACATGCCAAGTAACTTCCTT AATTCTGTGTAACAGATAAAGGAAATCAAGGAGAAAGCAATGACTGCCCTCAGTCCATATGAGC CACCACGAGGTCAACGAGAAGATCTTGGTAGAAATGGGGAACAAGCTGATCAGCCTACTAAGGA GCCTTTTGTATCCCTGCTGGAACTGGTTAGAGAAATCTATCAGGTAATGCTTCTGTCATTTATA TAGTCAAATCAAATTTATGGACCTGAAAGCACCTATGATTTAGGTTGACATGAGTCTTGCGTCC TCCCATGTTTTAGTCTTGTTTTGTTTTTATAACGATATTATCTATGCCATCTTCTGTGACCACT TGGTAATGGCTACTACTTCCCAGACAATAGATGCAAATGCAGTGTTCCAAAGCAAAAAGTAAAA CTTTCTTTTTGCTTCTCTGTCCTCGGTAAAATGGATTTTTTAAAAACTTTCTGCATGTGCACAC AACATTCTGCACTCATACGAGTCATTTTGGGTATCAATGGCTAGATGGGTGTCTTTCATACACT AGGTTGTGTGTTCAAACCCTCACAACTACATATTTTTGAAGGGCGGGCCTGGTGCAGCGGTAGA GCCTACCGTCTGTAACCGGAAGGTCCCGGGTTCGAGCTCCAGCCTCTGCATATTATGCGGGTAA GGCTTGGCGTTTAAAGATACCCTTCCCTAGACCCCGCACAGTGCGGGAAGCCTACGGCACTGGG TACGCCCTTTATCAAATGCTTACTAGGACACACTGTTCATTTTTTTGCTGCTTTGTGAACTTGA GCCCCAGTCAGATTCTGGCAACATGTGTCCCAAGCTTGACTGTTGTTTTTTTCTTATGATCGAT ATTTCTTTTATTTAGTTCGATACCCCCGTTAGAATACAGAAGGATTAATTATTCAGGCCTGCAT GCCTTGTTCTGTATAGATGGAGATGTATTTTAATTATAGATAGAGTTGTAACCGAACAGGACTA GATATAGAATCTTGATGGGTTACCACTATTGTAACTGAGTTGGACTTCAACTTATTGGCAGTTT CTGCTCATATAAATATACATCATACGGCCTCCTCTGGAGGATATACACTTAACTAATATGGTGG TTTTCTCTCAACTCCTGAGGCAACCAGACAACTGTGTTCATGTTGAAGGTTCTATGCAATCATG ATACATTATGAAATGTAATTGATGCATCCATTTCAACCACTGTTGGTCCTTGTAGTGTAATGCA CCTTTTAGTTTGACTGTTTTGTAGATTCTTGGCTCGTTTCCAATTCAAGGTTAAGATTTTCTTC CTCTAGTCTAGTAACTGCTTCCATCTGTCGTGATTGTGACCATCAGAAGTACGATCATGGATTT TCATTAGTGGAATTTAAGTATTGTTTCATCATCACTTTGAAGCCCGTGATTTGATCTTATAAAT GTTCATGAAGCAGTAATGATATTATGAAAGCGCATTTGATGTCCGTATGGTTACTACATTTGTT TTGAACACATACTATTTGATTAGCCTTTTTCAGTCTACTATTTTGTATGATCTCTCAAATGTTC TTTACTGTGTTTTTTGTTTGTTTGAGAAGTTTACATGGCAATAACATTTTTTTTGTTTGCATGT GTCTCTTCTATTCAGAAAGTGCCTGAGCTAGGGAATGGAAATGAGGAATTGTGGACTTTTGTTA TATATGCAGGAGAAGACCACACAAACACACAAACTCTTGTGGCCTTTCTTGGACTTCTTAGTAC TTTGGTATGCATTATTGTTACTGCTCTTTTCAGTTTTTCATTGTTTGCTTTTGCGCCGACTGAA CAACTGGACTTGTCAGGCTTCCACTGAAGTTGGTGCTGCCAAAGTCTATGAGCTGCTCCAGGGA AAAACTTACCGTTCAGTTGGTTGGAGCACTTTGTTTGATTGCTTATCTATCTATGAGGAGAAGT TCAAAAAATCAATTCAATCTTCTGCAAACATACTGCCTGATTTTCCTGAGGGGGATGCACAAGC GCTTGTTGCATATTTAGCTGTTCTTCAGAAGGTGTGAGATTTCTTGTACTTATTCATTTGTTTT GCTTGTCTTGGTCAGCTTTGTTCACAGTAAACTGGATTTCCATCTCTGACGATGATGGTTTTGG AATCACTATATTTTACCTTTAGCATTACCCTCCACTTTCCATGACTATCTCATCATTCTGAAGG TGTGGCACCTATCCTACGTTGTCGATTTCATGATTTTGTTCCTCCATCCCTTTTACACTTCAAT TCTGTAGTTGTGACTGCACATCATCAGCTATGCAAGTTTCTTTGAAAAATCAGAAAATTTAATC AGCCTTTGTCTCACCATATCACTCTTGCTTATTTTATACCCATTGAGAGGTTCGTTACTGGCTT ACAGCTGCATCTAGATTTTGGAGGCTTAGTAGAATTTTTAATGAATCAATACACTTCTGATCTC TCATCTGTACGCCTGTACTGGCCATAAATGAGTACCACAGCCACCACTACTACTAAGTTGCTTG TTGTGCCAGATACACTGTGTCTAATAAAGTGTTCTCTCCATCATGCATAATGATTCTGTTGCTA CTGTGTTTTCTCAAAGGAAGCTGCTTTGAGTTGTCTACATGATTAGATAAATCATTAAATTCGT GTACATGCTGTAGGTGGTGGAAAATGGGAATCTTACGGAACGCAGGAAGTGGTTCCCTGACATT GAACCTTTATTCAAGCTTCTCAGCTATGAAAATGTGCCTCCATACTTGAAGGTATAAGTTTTGA GTGCATCTGTACATCAGGCATCTTTTTCTTTTTTTTGGTTGGGTGGCAGTTATGTTTTATCATA ATATGTGCAGGGGGCTTTGCGAAATTCAATAACTGCATTTATAAAAGTGTCACCCATACTAAAG GATGCAATTTGGAATTATCTTGAGCAATATGATCTTCCGGTGGTTACAGCTCCATTAGGTCACC ATACAGCAACACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.057508407

Conservation Information
Conserved circRNAs	NA
PMCS	0.057508407

			
						 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 Zm00001d015754_circ_g.1

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